refs.bib

@article{Ag1000gConsortium2017,
author = {The Anopheles gambiae 1000 Genomes Consortium},
journal = {Nature},
pages = {96-100},
title = {{Natural diversity of the malaria vector Anopheles gambiae}},
volume = {552},
year = {2017}
}

@article{Silva2014,
author = {Silva, Ana Paula B and Santos, Joselita Maria M and Martins, Ademir J and Tadei, WP and Thatcher, BD and Santos, JMM and Scarpassa, VM and Rodrigues, IB and Rafael, MS and Harbach, RE and Service, MW and Townson, H and Sinka, ME and Bangs, MJ and Manguin, S and Rubio-Palis, Y and Chareonviryiyaphap, T and Coetzee, M and Mbogo, CM and Hemingway, J and Patil, AP and Temperley, WH and Gething, PW and Kabaria, CW and Burkot, TR and Harbach, RE and Hay, SI and Sinka, ME and Bangs, MJ and Manguin, S and Coetzee, M and Mbogo, CM and Hemingway, J and Patil, AP and Temperley, WH and Gething, PW and Kabaria, CW and Okara, RM and Boeckel, TV and Godfray, HCJ and Harbach, RE and Hay, SI and Sinka, ME and Bangs, MJ and Manguin, S and Chareonviriyaphap, T and Patil, AP and Temperley, WH and Gething, PW and Elyazar, IRF and Kabaria, CW and Harbach, RE and Hay, SI and Sinka, ME and Rubio-Palis, Y and Manguin, S and Patil, AP and Temperley, WH and Gething, PW and Boeckel, TV and Kabaria, CW and Harbach, RE and Hay, SI and Consoli, RAGB and Louren{\c{c}}o-de-Oliveira, R and Rose, RI and Mellanby, K and Govere, JM and Durrheim, DN and Kunene, S and Morales-Rojas, H and Moss, RA and Fukuto, TR and Gupta, RC and Omoto, C and Schleier, JJ and Peterson, RKD and Davies, TGE and Field, LM and Usherwood, PNR and Williamson, MS and Palchick, S and Phillips-Howard, PA and Nahlen, BL and Kolczack, MS and HIghtower, AW and Kuile, FO and Alaii, JA and Gimnig, JE and Arudo, J and Vulule, JM and Odhacha, A and Kachur, SP and Schoute, E and Rosen, DH and Sexton, JD and Oloo, AJ and Hawley, WA and Hill, J and Lines, J and Rowland, M and Jones, CM and Haji, KA and Khatib, BO and Bagi, J and Mcha, J and Devine, GJ and Daley, M and Kabula, B and Ali, AS and Majambere, S and Ranson, H and Catterall, WA and Chandy, KG and Clapham, DE and Gutman, GA and Hofmann, F and Harmar, AJ and Abernethy, DR and Spedding, M and Davies, TGE and Field, LM and Usherwood, PN and Williamson, MS and O'Reilly, AO and Khambay, BPS and Williamson, MS and Field, LA and Wallace, BA and Davies, TGE and Du, Y and Nomura, Y and Satar, G and Hu, Z and Nauen, R and He, SY and Zhorov, BS and Dong, K and Subramanyam, BH and Hagstrum, DW and Crow, JF and Dong, K and Hemingway, J and Ranson, H and Ranson, H and N'Guessan, R and Lines, J and Moiroux, N and Nkuni, Z and Corbel, V and Martins, AJ and Valle, D and Hemingway, J and Karaaga{\c{c}}, SU and Hemingway, J and Hawkes, NJ and McCarroll, L and Ranson, H and Brogdon, WG and McAllister, JC and David, JP and Strode, C and Vontas, J and Nikou, D and Vaughan, A and Pignatelli, PM and Louis, C and Hemingway, J and Ranson, H and M{\"{u}}ller, P and Chouaibou, M and Pignatelli, P and Etang, J and Walker, ED and Donelly, MJ and Simard, F and Ranson, H and M{\"{u}}ller, P and Warr, E and Stevenson, BJ and Pignatelli, PM and Morgan, JC and Steven, A and Yawson, AE and Mitchell, SN and Ranson, H and Hemingway, J and Paine, MJ and Donnelly, MJ and Christian, RN and Strode, C and Ranson, H and Coetzer, N and Coetzee, M and Koekemoer, LL and Pittendrigh, BR and Margam, VM and Sun, L and Huesing, JE and Ffrench-Constant, RH and Pittendrigh, B and Vaughan, A and Anthony, N and Wondji, CS and Morgan, J and Coetzee, M and Hunt, RH and Steen, K and Black, WC and Hemingway, J and Ranson, H and Corbel, V and N'Guessan, R and Williamson, MS and Martinez-Torres, D and Hick, CA and Devonshire, AL and Martinez-Torres, D and Chandre, E and Williamson, MS and Darriet, F and Berg{\'{e}}, JB and Devonshire, AL and Guillet, P and Pasteur, N and Pauron, D and Reimer, LJ and Tripet, F and Slotman, M and Spielman, A and Fondjo, E and Lanzaro, GC and Girod, R and Orlandi-Pradines, E and Rogier, C and Pages, F and Awolola, TS and Oduola, AO and Oyewole, IO and Obansa, JB and Amajoh, CN and Koekemoer, LL and Coetzee, M and Dabir{\'{e}}, KR and Diabat{\'{e}}, A and Namountougou, M and To{\'{e}}, KH and Ouari, A and Kengne, P and Bass, C and Baldet, T and Balkew, M and Ibrahim, M and Koekemoer, LL and Brooke, BD and Engers, J and Aseffa, A and Michael, TG and Elhassen, I and Coetzee, M and Koekemoer, LL and Ranson, H and Jensen, B and Vulule, JM and Wang, X and Hemingway, J and Collins, FH and Pinto, J and Lynd, A and Vicente, JL and Santolamazza, F and Randle, NP and Gentile, G and Moreno, M and Simard, F and Charlwood, JD and Ros{\'{a}}rio, VE and Caccone, A and Torre, AD and Donnelly, MJ and Santolamazza, F and Calzetta, M and Etang, J and Barrese, E and Dia, I and Caccone, A and Donnelly, MJ and Petrarca, V and Simard, F and Pinto, J and Torre, AD and Kim, H and Baek, JH and Lee, WJ and Lee, SH and Tan, WL and Li, CX and Wang, ZM and Liu, MD and Dong, YD and Feng, XY and Wu, ZM and Guo, XX and Xing, D and Zhang, YM and Wang, ZC and Zhao, TY and Singh, OP and Dykes, CL and Das, MK and Pradhan, S and Bhatt, RM and Agrawal, OP and Adak, T and Ingles, PJ and Adams, PM and Knipple, DC and Soderlund, DM and Jamroz, RC and Guerrero, FD and Kammlah, DM and Kunz, SE and Anstead, JA and Mallet, J and Denholm, I and Eleftherianos, I and Foster, SP and Williamson, MS and Denholm, I and Toda, S and Morishita, M and Haddi, K and Berger, M and Bielza, P and Cifuentes, D and Field, LM and Gorman, K and Rapisarda, C and Williamson, MS and Bass, C and Yawson, AE and McCall, PJ and Wilson, MD and Donnelly, MJ and Adasi, K and Hemingway, J and Adeniran, TT and Brown, CA and Rogers, W and Wilson, MD and Appawu, MA and Boakye, DA and Boakye, DA and Adasi, K and Appawu, M and Brown, CA and Wilson, MD and Agyepong, N and Mak-Mensah, EE and Brown, CA and Jones, CM and Liyanapathirana, M and Agossa, FR and Weetman, D and Ranson, H and Donelly, MJ and Wilding, CS and Awolola, TS and Oduola, AMJ and Strode, C and Koekemoer, LL and Brooke, B and Ranson, H and Awolola, TS and Brooke, BD and Hunt, RH and Coetzee, M and Oduola, AO and Idowu, ET and Oyebola, MK and Adeogun, AO and Olojede, JB and Otubanjo, OA and Awolola, TS and Diabate, A and Baldet, T and Chandre, C and Dabir{\'{e}}, KR and Kengne, P and Guiguemde, TR and Simard, F and Guillet, P and Hemingway, J and Hougard, JM and Namountougou, M and Simard, F and Baldet, T and Diabat{\'{e}}, A and Ou{\'{e}}draogo, B and Martin, T and Dabir{\'{e}}, RK and Chandre, F and Darriet, F and Duchon, S and Finot, L and Manguin, S and Carnevale, P and Guillet, P and Diabate, A and Brengues, C and Baldet, T and Dabir{\'{e}}, KR and Hougard, JM and Akogb{\'{e}}to, M and Kengne, P and Simard, F and Guillet, P and Hemingway, J and Chandre, F and Dabir{\'{e}}, KR and Diabat{\'{e}}, A and Djogbenou, L and Ouari, A and N'Guessan, R and Ou{\'{e}}draogo, JB and Hougard, JM and Chandre, F and Baldet, T and Badolo, A and Traore, A and Jones, CM and Sanou, A and Flood, L and Guelbeogo, WM and Ranson, H and Sagnon, NF and Dabir{\'{e}}, RK and Namountougou, M and Sawadogo, SP and Yaro, LB and To{\'{e}}, HK and Ouari, A and Gouagna, LC and Simard, F and Chandre, F and Baldet, T and Bass, C and Diabat{\'{e}}, A and Nwane, P and Etang, J and Chouaibou, M and Toto, JC and Koffi, A and Mimpfoundi, R and Simard, F and Etang, J and Fondjo, E and Chandre, E and Morlais, I and Brengues, C and Nwane, P and Chouaibou, M and Ndjemai, H and Simard, F and Etang, J and Fondjo, E and Chandre, F and Morlais, I and Brengues, C and Nwane, P and Chouaibou, M and Ndjemai, H and Simard, F and Reimer, L and Fondjo, E and Patchok{\'{e}}, S and Diallo, B and Lee, Y and Ng, A and Ndjemai, HM and Atanga, J and Traore, SF and Lanzaro, G and Cornel, AJ and Nwane, P and Etang, J and Chouaibou, M and Toto, JC and Hinzoumb{\'{e}}, CK and Mimpfoundi, R and Ambene, HPF and Simard, F and Bigoga, JD and Ndangoh, DN and Ambene, PHA and Patchok{\'{e}}, S and Fondjo, E and Leke, RGF and Chouaibou, M and Etang, J and Br{\'{e}}vault, T and Nwane, P and Hinzoumb{\'{e}}, CK and Mimpfoundi, R and Simard, F and Nwane, P and Etang, J and Chouaibou, M and Toto, JC and Mimpfoundi, R and Simard, F and Ndjemai, HNM and Patchok{\'{e}}, S and Atanga, J and Etang, J and Simard, F and Bilong, CFB and Reimer, L and Cornel, A and Lanzaro, GC and Fondjo, E and Edi, CVA and Koudou, BG and Jones, CM and Weetman, D and Ranson, H and Koffi, AA and Alou, LPA and Adja, MA and Chandre, F and Pennetier, C and Koffi, AA and Alou, LPA and Kabran, JP and N'Guessan, R and Pennetier, C and Ochomo, E and Bayoh, MN and Brogdon, WG and Gimnig, JE and Ouma, C and Vulule, JM and Walker, ED and Stump, AD and Atieli, FK and Vulule, JM and Besansky, NJ and Chen, H and Githeko, AK and Githure, JI and Mutunga, J and Zhou, G and Yan, G and Kawada, H and Dida, GO and Ohashi, K and Komagata, O and Kasai, S and Tomita, T and Sonye, G and Maekawa, Y and Mwatele, C and Njenga, SM and Mwandawiro, C and Minakawa, N and Takagi, M and Kawada, H and Futami, K and Komagata, O and Kasai, S and Tomita, T and Sonye, G and Mwatele, C and Njenga, SM and Mwandawiro, C and Minakawa, N and Takagi, M and Mathias, DK and Ochomo, E and Atieli, F and Ombok, M and Bayoh, MN and Olang, G and Muhia, D and Kamau, L and Vulule, JM and Hamel, MJ and Hawley, WA and Walker, ED and Gimnig, JE and Ochomo, EO and Bayoh, NM and Walker, ED and Abongo, BO and Ombok, MO and Ouma, C and Githeko, AK and Vulule, J and Yan, G and Gimnig, JE and Cuamba, N and Choi, KS and Townson, H and Ngufor, C and N'Guessan, R and Boko, P and Odjo, A and Vigninou, E and Asidi, A and Akogb{\'{e}}to, M and Rowland, M and Oss{\`{e}}, R and Gnanguenon, V and S{\`{e}}zonlin, M and A{\"{i}}kpon, R and Padonou, G and Yadoul{\'{e}}ton, A and Akogb{\'{e}}to, MC and Yadouleton, AWM and Asidi, A and Djouaka, RF and Bra{\"{i}}ma, J and Agossou, CD and Akogb{\'{e}}to, MC and Yadouleton, AW and Padanou, G and Asidi, A and Moiroux, N and Banganna, SB and Corbel, V and N'Guessan, R and Gbenou, D and Yacoubou, I and Gazard, K and Akogb{\'{e}}to, MC and Dj{\'{e}}gbe, I and Boussari, O and Sidick, A and Martin, T and Ranson, H and Chandre, F and Akogb{\'{e}}to, M and Corbel, V and Padonou, GG and Sezonlin, M and Oss{\`{e}}, R and A{\"{i}}zoun, N and Agbo, FO and Oussou, O and Gb{\'{e}}djissi, G and Akogb{\'{e}}to, M and Tripet, F and Wright, J and Cornel, A and Fofana, A and Mcabee, R and Meneses, C and Reimer, L and Slotman, M and Thiemann, T and Dolo, G and Traor{\'{e}}, S and Lanzaro, G and Fryxell, RTT and Seifert, SN and Lee, Y and Sacko, A and Lanzaro, G and Cornel, A and Hinzoumb{\'{e}}, CK and P{\'{e}}ka, M and Nwane, P and Gouni, ID and Etang, J and Ekobo, AS and Simard, F and Koekemoer, LL and Spillings, BL and Christian, RN and Lo, TCM and Kaiser, ML and Norton, RAI and Oliver, SV and Choi, KS and Brooke, BD and Hunt, RH and Coetzee, M and Kanza, JPB and Fahime, EE and Alaoui, S and Essassi, EM and Brooke, B and Malafu, AN and Tezzo, FW and Moreno, M and Vicente, JL and Cano, J and Bersoza, PJ and Lucio, A and Nzambo, S and Bobuakasi, L and Buatiche, JN and Ondo, M and Micha, F and Rosario, VE and Pinto, J and Benito, A and Pinto, J and Lynd, A and Elissa, N and Donnelly, MJ and Costa, C and Gentile, C and Caccone, A and Ros{\'{a}}rio, VE and Mourou, JR and Coffinet, T and Jarjaval, F and Pradines, B and Amalvict, R and Rogier, C and Kombila, M and Pag{\`{e}}s, F and Ndiath, MO and Sougoufara, S and Gaye, A and Mazenot, C and Konate, L and Faye, O and Sokhna, C and Trape, JF and Verhaeghen, K and Bortel, WV and Roelants, P and Okello, PE and Talisuna, A and Coosemans, M and Okia, M and Ndyomugyenyi, R and Kirunda, J and Byaruhanga, A and Adibaku, S and Lwamafa, DK and Kironde, F and Verhaeghen, K and Bortel, WV and Roelants, P and Backeljau, T and Coosemans, M and Ramphul, U and Boase, T and Bass, C and Okedi, LM and Donelly, MJ and M{\"{u}}ller, P and Protopopoff, N and Matowo, J and Malima, R and Kavishe, R and Kaaya, R and Wright, A and West, PA and Kleinschmidt, I and Kisinza, W and Mosha, FW and Rowland, M and Protopopoff, N and Verhaeghen, K and Bortel, WV and Roelants, P and Marcotty, T and Baza, D and D'Alessandro, U and Coosemans, M and Temu, EA and Maxwell, C and Munyekenye, G and Howard, AFV and Munga, S and Avicor, SW and Poupardin, R and Jones, JJ and Allan, R and Kleinschmidt, I and Ranson, H and Czeher, C and Labbo, R and Arzika, I and Duchemin, JB and Matambo, TS and Abdalla, H and Brooke, BD and Koekemoer, LL and Mnzava, A and Hunt, RH and Coetzee, M and Himeidan, YE and Chen, H and Chandre, F and Donnelly, MJ and Yan, G and Himeidan, YE and Hamid, MMA and Jones, CM and Ranson, H and Abuelmaali, SA and Elaagip, AH and Basheer, MA and Frah, EA and Ahmed, FTA and Elhaj, HFA and Seidahmed, OME and Weetman, D and Hamid, MMA and Diabate, A and Baldet, T and Chandre, E and Dabir{\'{e}}, KR and Simard, F and Ouedraogo, JB and Guillet, P and Hougard, JM and Jones, CM and To{\'{e}}, HK and Sanou, A and Namountougou, M and Hughes, A and Diabat{\'{e}}, A and Dabir{\'{e}}, R and Simard, F and Ranson, H and Yewhalaw, D and Bortel, WV and Denis, L and Coosemans, M and Duchateau, L and Speybroeck, N and Kulkarni, MA and Rowland, M and Alifrangis, M and Mosha, FW and Matowo, J and Malima, R and Peter, J and Kweka, E and Lyimo, I and Magesa, S and Salanti, A and Rau, ME and Drakeley, C and Chang, XL and Xue, YQ and Zhang, AD and Zhu, GD and Fang, Q and Zhong, D and Chang, X and Zhou, G and He, Z and Fu, F and Yan, Z and Zhu, G and Xu, T and Bonizzoni, M and Wang, MH and Cui, L and Zheng, B and Chen, B and Yan, G and Tan, WL and Wang, ZM and Li, CX and Chu, HL and Xu, Y and Dong, YD and Wang, ZC and Chen, DY and Liu, H and Liu, DP and Liu, N and Sun, J and Zhao, T and Kang, S and Jung, J and Lee, S and Hwang, H and Kim, W and Verhaeghen, K and van Bortel, W and Trung, HD and Sochantha, T and Koeokenchanh, K and Coosemans, M and Enayati, AA and Vatandoost, H and Ladonni, H and Townson, H and Hemingway, J and Gayathri, V and Murthy, PB and Singh, OP and Dykes, CL and Lather, M and Agrawal, OP and Adak, T and Karunaratne, SH and Hawkes, NJ and Perera, MD and Ranson, H and Hemingway, J and Syafruddin, D and Hidayati, APN and Asih, PBS and Hawley, WA and Sukowati, S and Lobo, NF and Lol, JC and Castellanos, ME and Liebman, KA and Lenhart, A and Pennington, PM and Padilla, NR and L{\"{u}}leyap, HP and Alptekin, D and Kasap, H and Kasap, M and Singh, OP and Bali, P and Hemingway, J and Subbarao, SK and Dash, AP and Adak, T and Slotman, MA and Torre, A Della and Calzetta, M and Powell, JR and Coluzzi, M and Sabatini, A and Petrarca, V and Deco, MA Di and Chandre, F and Brengues, C and Dossou-Yovo, J and Ma, GS and Darriet, F and Diabate, A and Carnevale, P and Guillet, P and Weill, M and Chandre, F and Brengues, C and Manguin, S and Akogb{\'{e}}to, M and Pasteur, N and Guillet, P and Raymond, M and Lengeler, C and Adeogun, AO and Olojede, JB and Oduola, AO and Awolola, TS and Corbel, V and Chandre, F and Brengues, C and Akogb{\'{e}}to, M and Lardeux, F and Hougard, JM and Guillet, P and John, R and Ephraim, T and Andrew, A and A{\"{i}}zoun, N and Aikpon, R and Akogb{\'{e}}to, M and Asidi, AN and N'Guessan, R and Koffi, AA and Curtis, CF and Hougard, JM and Chandre, F and Corbel, V and Darriet, F and Zaim, M and Rowland, MW and V{\'{e}}zilier, J and Nicot, A and Gandon, S and Rivero, A and F{\'{e}}lix, RC and M{\"{u}}ller, P and Ribeiro, V and Ranson, H and Silveira, H and James, RR and Xu, J and Lo, TM and Coetzee, M and Alout, H and Ndam, NT and Sandeu, MM and Dj{\'{e}}gbe, I and Chandre, F and Dabir{\'{e}}, KR and Djogb{\'{e}}nou, LS and Corbel, V and Cohuet, A and Lynd, A and Ranson, H and McCall, PJ and Randle, NP and Black, WC and Walker, ED and Donnelly, MJ and Kolaczinski, JH and Fanello, C and Herv{\'{e}}, JP and Conway, DJ and Carnevale, P and Curtis, CF and Tripet, F and Wright, J and Lanzaro, G and Liew, M and Pryor, R and Palais, R and Meadows, C and Erali, M and Lyon, E and Wittwer, C and Badolo, A and Okado, K and Guelbeogo, WM and Aonuma, H and Bando, H and Fukumoto, S and Sagnon, NF and Kanuka, H and Janeira, F and Vicente, JL and Kanganje, Y and Moreno, M and Ros{\'{a}}rio, VE and Cravo, P and Pinto, J and Kazanidou, A and Nikou, D and Grigoriou, M and Vontas, J and Skavdis, G and Georghiou, GP and Glunt, KD and Thomas, MB and Read, AF and N'Guessan, R and Asidi, A and Boko, P and Odjo, A and Akogb{\'{e}}to, M and Pigeon, O and Rowland, M},
doi = {10.1186/1756-3305-7-450},
issn = {1756-3305},
journal = {Parasites {\&} Vectors},
keywords = {Entomology,Infectious Diseases,Parasitology,Tropical Medicine},
number = {1},
pages = {450},
title = {{Mutations in the voltage-gated sodium channel gene of anophelines and their association with resistance to pyrethroids: a review}},
url = {http://parasitesandvectors.biomedcentral.com/articles/10.1186/1756-3305-7-450},
volume = {7},
year = {2014}
}

@article{Santolamazza2015,
author = {Santolamazza, Federica and Caputo, Beniamino and Nwakanma, Davis C and Fanello, Caterina and Petrarca, Vincenzo and Conway, David J and Weetman, David and Pinto, Joao and Mancini, Emiliano and {Della Torre}, Alessandra},
doi = {10.1186/s12936-014-0522-1},
issn = {1475-2875},
journal = {Malaria journal},
keywords = {Mosquito,Malaria,Hybridization,correspondence,emiliano,hybridization,it,malaria,mancini,mosquito,uniroma1},
number = {1},
pages = {9},
title = {{Remarkable diversity of intron-1 of the para voltage-gated sodium channel gene in an Anopheles gambiae/Anopheles coluzzii hybrid zone.}},
url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4308935{\&}tool=pmcentrez{\&}rendertype=abstract},
volume = {14},
year = {2015}
}

@article{Sonoda2008,
author = {Sonoda, Shoji and Tsukahara, Yoshitaka and Ashfaq, Muhammad and Tsumuki, Hisaaki},
doi = {10.1002/arch.20246},
issn = {07394462},
journal = {Archives of Insect Biochemistry and Physiology},
keywords = {Diamondback moth,Plutella xylostella,Pyrethroid,Sodium channel},
number = {1},
pages = {1--12},
title = {{Genomic organization of the para-sodium channel ??-subunit genes from the pyrethroid-resistant and -susceptible strains of the diamondback moth}},
volume = {69},
year = {2008}
}

@article{Sabeti2006,
author = {Sabeti, P. C.},
doi = {10.1126/science.1124309},
issn = {0036-8075},
journal = {Science},
number = {5780},
pages = {1614--1620},
title = {{Positive Natural Selection in the Human Lineage}},
url = {http://www.sciencemag.org/cgi/doi/10.1126/science.1124309},
volume = {312},
year = {2006}
}

@article{Sabeti2002,
author = {Sabeti, Pardis C. and Reich, David E. and Higgins, John M. and Levine, Haninah Z. P. and Richter, Daniel J. and Schaffner, Stephen F. and Gabriel, Stacey B. and Platko, Jill V. and Patterson, Nick J. and McDonald, Gavin J. and Ackerman, Hans C. and Campbell, Sarah J. and Altshuler, David and Cooper, Richard and Kwiatkowski, Dominic and Ward, Ryk and Lander, Eric S.},
doi = {10.1038/nature01140},
issn = {0028-0836},
journal = {Nature},
number = {6909},
pages = {832--837},
title = {{Detecting recent positive selection in the human genome from haplotype structure}},
url = {http://www.nature.com/doifinder/10.1038/nature01140},
volume = {419},
year = {2002}
}

@techreport{WorldHealthOrganization2012,
address = {Geneva},
author = {{World Health Organization}},
institution = {{World Health Organization}},
title = {{Global Plan for Insecticide Resistance Management (GPIRM)}},
year = {2012}
}

@techreport{WorldHealthOrganization2016,
address = {Geneva},
author = {{World Health Organization}},
institution = {{World Health Organization}},
title = {{Implications of insecticide resistance for malaria vector control}},
year = {2016}
}

@article{WorldHealthOrganization2013,
author = {{World Health Organization}},
doi = {10.1007/978-3-642-10565-4},
issn = {924150515X},
journal = {World Health Organisation Technical Report Series},
keywords = {Insect Control,Insecticide Resistance,Insecticides,Malaria - prevention and control,Test procedures for insecticide resistance monitor,World Health Organization,World Health Organization 2016},
pages = {22},
title = {{Test procedures for insecticide resistance monitoring in malaria vector mosquitoes}},
url = {http://apps.who.int/iris/bitstream/10665/250677/1/9789241511575-eng.pdf},
year = {2013}
}

@article{Turner2005,
author = {Turner, Thomas L. and Hahn, Matthew W. and Nuzhdin, Sergey V.},
doi = {10.1371/journal.pbio.0030285},
issn = {15449173},
journal = {PLoS Biology},
number = {9},
pages = {1572--1578},
title = {{Genomic islands of speciation in Anopheles gambiae}},
volume = {3},
year = {2005}
}

@article{Weetman2015,
author = {Weetman, David and Mitchell, Sara N. and Wilding, Craig S. and Birks, Daniel P. and Yawson, Alexander E. and Essandoh, John and Mawejje, Henry D. and Djogbenou, Luc S. and Steen, Keith and Rippon, Emily J. and Clarkson, Christopher S. and Field, Stuart G. and Rigden, Daniel J. and Donnelly, Martin J.},
doi = {10.1111/mec.13197},
issn = {1365294X},
journal = {Molecular Ecology},
keywords = {Ace-1 G119S,Acetylcholinesterase,gene duplication,malaria mosquito,purifying selection},
number = {11},
pages = {2656--2672},
title = {{Contemporary evolution of resistance at the major insecticide target site gene Ace-1 by mutation and copy number variation in the malaria mosquito Anopheles gambiae}},
volume = {24},
year = {2015}
}

@article{Williamson1996a,
author = {Williamson, Martin S. and Martinez-Torres, David and Hick, Caroline A. and Devonshire, Alan L.},
doi = {10.1007/s004389670006},
issn = {00268925},
journal = {Molecular and General Genetics},
keywords = {Knockdown resistance (kdr),Musca domestica,Pyrethroid,Sodium channel gene,para},
number = {1-2},
pages = {51--60},
title = {{Identification of mutations in the housefly para-type sodium channel gene associated with knockdown resistance (kdr) to pyrethroid insecticides}},
volume = {252},
year = {1996}
}

@article{Toe2014,
author = {To{\'{e}}, Kobi{\'{e}} H. and Jones, Christopher M. and N'fale, Sagnon and Ismai, Hanafy M. and Dabir{\'{e}}, Roch K. and Ranson, Hilary},
doi = {10.3201/eid2010.140619},
issn = {10806059},
journal = {Emerging Infectious Diseases},
number = {10},
pages = {1691--1696},
title = {{Increased pyrethroid resistance in malaria vectors and decreased bed net effectiveness Burkina Faso}},
volume = {20},
year = {2014}
}

@article{Reimer2005,
author = {Reimer, L. J. and Tripet, F. and Slotman, M. and Spielman, A. and Fondjo, E. and Lanzaro, G. C.},
doi = {10.1111/j.1365-2583.2005.00599.x},
issn = {09621075},
journal = {Insect Molecular Biology},
keywords = {Anopheles gambiae,Bioko,Molecular forms,kdr},
number = {6},
pages = {683--688},
title = {{An unusual distribution of the kdr gene among populations of Anopheles gambiae on the island of Bioko, Equatorial Guinea}},
volume = {14},
year = {2005}
}

@article{Ranson2000,
author = {Ranson, H. and Jensen, B. and Vulule, J. M. and Wang, X. and Hemingway, J. and Collins, F. H.},
doi = {10.1046/j.1365-2583.2000.00209.x},
issn = {09621075},
journal = {Insect Molecular Biology},
keywords = {Anopheles gambiae,DDT resistance,Kdr,Pyrethroid resistance,Sodium channel},
number = {5},
pages = {491--497},
title = {{Identification of a point mutation in the voltage-gated sodium channel gene of Kenyan Anopheles gambiae associated with resistance to DDT and pyrethroids}},
volume = {9},
year = {2000}
}

@article{Rinkevich2013,
archivePrefix = {arXiv},
author = {Rinkevich, Frank D. and Du, Yuzhe and Dong, Ke},
doi = {10.1016/j.pestbp.2013.02.007},
eprint = {NIHMS150003},
issn = {00483575},
journal = {Pesticide Biochemistry and Physiology},
keywords = {Knockdown resistance,Pyrethroid resistance,Sodium channel,Sodium channel mutations},
number = {3},
pages = {93--100},
title = {{Diversity and convergence of sodium channel mutations involved in resistance to pyrethroids}},
volume = {106},
year = {2013}
}

@article{Pinto2007,
author = {Pinto, J and Lynd, A and Vicente, J L and Santolamazza, F and Randle, N P and Gentile, G and Moreno, M and Simard, F and Charlwood, J D and do Rosario, V E and Caccone, A and {Della Torre}, A and Donnelly, M J},
doi = {10.1371/journal.pone.0001243},
issn = {19326203},
journal = {PLoS One},
keywords = {*Mutation,Animals,Anopheles gambiae/drug effects/*genetics,Base Sequence,DNA Primers,Drug Resistance/genetics,Female},
pages = {e1243},
title = {{Multiple origins of knockdown resistance mutations in the Afrotropical mosquito vector Anopheles gambiae}},
url = {http://www.ncbi.nlm.nih.gov/pubmed/18043750},
volume = {2},
year = {2007}
}

@article{NGuessan2007,
author = {{N'Guessan R, Corbel V, Akogb{\'{e}}to M, Rowland M.}},
doi = {10.3201/eid1302.060631},
issn = {10806040},
journal = {Emerging Infectious Diseases},
pages = {199--206},
title = {{Reduced efficacy of insecticide-treated nets and indoor residual spraying for Malaria control in area of pyrethroid resistance, Benin.}},
volume = {13},
year = {2007}
}

@article{OReilly2006,
author = {O'Reilly, Andrias O. and Khambay, Bhupinder P. S. and Williamson, Martin S. and Field, Linda M. and Wallace, B. A. and Davies, T. G. Emyr},
doi = {10.1042/BJ20051925},
issn = {0264-6021},
journal = {Biochemical Journal},
number = {2},
pages = {255--263},
title = {{Modelling insecticide-binding sites in the voltage-gated sodium channel}},
url = {http://biochemj.org/lookup/doi/10.1042/BJ20051925},
volume = {396},
year = {2006}
}

@article{Lehmann1998,
author = {Lehmann, T and Hawley, W A and Grebert, H and Collins, F H},
doi = {10.1093/oxfordjournals.molbev.a025923},
issn = {0737-4038},
journal = {Molecular biology and evolution},
number = {3},
pages = {264--76},
title = {{The effective population size of Anopheles gambiae in Kenya: implications for population structure.}},
url = {http://www.ncbi.nlm.nih.gov/pubmed/9501493},
volume = {15},
year = {1998}
}

@article{Holt2002,
author = {Holt, R A and Subramanian, G M and Halpern, A and Sutton, G G and Charlab, R and Nusskern, D R and Wincker, P and Clark, A G and Ribeiro, J M and Wides, R and Salzberg, S L and Loftus, B and Yandell, M and Majoros, W H and Rusch, D B and Lai, Z and Kraft, C L and Abril, J F and Anthouard, V and Arensburger, P and Atkinson, P W and Baden, H and de Berardinis, V and Baldwin, D and Benes, V and Biedler, J and Blass, C and Bolanos, R and Boscus, D and Barnstead, M and Cai, S and Center, A and Chaturverdi, K and Christophides, G K and Chrystal, M A and Clamp, M and Cravchik, A and Curwen, V and Dana, A and Delcher, A and Dew, I and Evans, C A and Flanigan, M and Grundschober-Freimoser, A and Friedli, L and Gu, Z and Guan, P and Guigo, R and Hillenmeyer, M E and Hladun, S L and Hogan, J R and Hong, Y S and Hoover, J and Jaillon, O and Ke, Z and Kodira, C and Kokoza, E and Koutsos, A and Letunic, I and Levitsky, A and Liang, Y and Lin, J J and Lobo, N F and Lopez, J R and Malek, J A and McIntosh, T C and Meister, S and Miller, J and Mobarry, C and Mongin, E and Murphy, S D and O'Brochta, D A and Pfannkoch, C and Qi, R and Regier, M A and Remington, K and Shao, H and Sharakhova, M V and Sitter, C D and Shetty, J and Smith, T J and Strong, R and Sun, J and Thomasova, D and Ton, L Q and Topalis, P and Tu, Z and Unger, M F and Walenz, B and Wang, A and Wang, J and Wang, M and Wang, X and Woodford, K J and Wortman, J R and Wu, M and Yao, A and Zdobnov, E M and Zhang, H and Zhao, Q and Zhao, S and Zhu, S C and Zhimulev, I and Coluzzi, M and della Torre, A and Roth, C W and Louis, C and Kalush, F and Mural, R J and Myers, E W and Adams, M D and Smith, H O and Broder, S and Gardner, M J and Fraser, C M and Birney, E and Bork, P and Brey, P T and Venter, J C and Weissenbach, J and Kafatos, F C and Collins, F H and Hoffman, S L},
doi = {10.1126/science.1076181},
issn = {0036-8075},
journal = {Science},
keywords = {*Genes, Insect,*Genome,*Sequence Analysis, DNA,Animals,Anopheles/classification/*genetics/parasitology/ph,Biological Evolution,Blood,Chromosome Inversion,Chromosomes, Artificial, Bacterial,Computational Biology,DNA Transposable Elements,Digestion,Drosophila melanogaster/genetics,Enzymes/chemistry/genetics/metabolism,Expressed Sequence Tags,Feeding Behavior,Gene Expression Regulation,Genetic Variation,Haplotypes,Humans,Insect Proteins/chemistry/genetics/physiology,Insect Vectors/genetics/parasitology/physiology,Malaria, Falciparum/transmission,Molecular Sequence Data,Mosquito Control,Physical Chromosome Mapping,Plasmodium falciparum/growth {\&} development,Polymorphism, Single Nucleotide,Proteome,Species Specificity,Transcription Factors/chemistry/genetics/physiolog},
number = {5591},
pages = {129--149},
title = {{The genome sequence of the malaria mosquito Anopheles gambiae}},
url = {http://www.ncbi.nlm.nih.gov/pubmed/12364791{\%}5Cnhttp://www.sciencemag.org/content/298/5591/129.full.pdf},
volume = {298},
year = {2002}
}

@article{Etang2009,
author = {Etang, Josiane and Vicente, Jose L. and Nwane, Philippe and Chouaibou, Mouhamadou and Morlais, Isabelle and {Do Rosario}, Virgilio E. and Simard, Frederic and Awono-Ambene, Parfait and Toto, Jen Claude and Pinto, Joao},
doi = {10.1111/j.1365-294X.2009.04256.x},
issn = {09621083},
journal = {Molecular Ecology},
keywords = {Anopheles gambiae,Cameroon,Insecticide resistance,intron-1,malaria,mutations},
number = {14},
pages = {3076--3086},
title = {{Polymorphism of intron-1 in the voltage-gated sodium channel gene of Anopheles gambiae s.s. populations from cameroon with emphasis on insecticide knockdown resistance mutations}},
volume = {18},
year = {2009}
}

@article{Kumar2016,
author = {Kumar, Sudhir and Stecher, Glen and Tamura, Koichiro},
doi = {10.1093/molbev/msw054},
issn = {15371719},
journal = {Molecular biology and evolution},
keywords = {evolution.,gene families,software,timetree},
number = {7},
pages = {1870--1874},
title = {{MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets}},
volume = {33},
year = {2016}
}

@article{Menelaou2013,
author = {Menelaou, Androniki and Marchini, Jonathan},
doi = {10.1093/bioinformatics/bts632},
issn = {13674803},
journal = {Bioinformatics},
number = {1},
pages = {84--91},
title = {{Genotype calling and phasing using next-generation sequencing reads and a haplotype scaffold}},
volume = {29},
year = {2013}
}

@article{Lee2013,
author = {Lee, Yoosook and Marsden, Clare D and Norris, Laura C and Collier, Travis C and Main, Bradley J and Fofana, Abdrahamane and Cornel, Anthony J and Lanzaro, Gregory C},
doi = {10.1073/pnas.1316851110},
issn = {1091-6490},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
keywords = {Africa, Western,Animals,Anopheles gambiae,Anopheles gambiae: genetics,Anopheles gambiae: physiology,Gene Flow,Gene Flow: genetics,Genetic Fitness,Genetic Fitness: genetics,Genetics, Population,Genotype,Hybridization, Genetic,Hybridization, Genetic: genetics,Likelihood Functions,Polymorphism, Single Nucleotide,Polymorphism, Single Nucleotide: genetics,Species Specificity,Time Factors},
number = {49},
pages = {19854--9},
title = {{Spatiotemporal dynamics of gene flow and hybrid fitness between the M and S forms of the malaria mosquito, Anopheles gambiae.}},
url = {http://www.pnas.org/content/110/49/19854.short},
volume = {110},
year = {2013}
}

@article{Lynd2010,
author = {Lynd, Amy and Weetman, David and Barbosa, Susana and {Egyir Yawson}, Alexander and Mitchell, Sara and Pinto, Joao and Hastings, Ian and Donnelly, Martin J.},
doi = {10.1093/molbev/msq002},
issn = {07374038},
journal = {Molecular Biology and Evolution},
keywords = {Anopheles gambiae,Insecticide resistance,Malaria,Selection},
number = {5},
pages = {1117--1125},
title = {{Field, genetic, and modeling approaches show strong positive selection acting upon an insecticide resistance mutation in anopheles gambiae s.s.}},
volume = {27},
year = {2010}
}

@article{Loughney1989,
author = {Loughney, K and Kreber, R and Ganetzky, B},
doi = {0092-8674(89)90512-6 [pii]},
issn = {0092-8674},
journal = {Cell},
number = {6},
pages = {1143--1154},
title = {{Molecular analysis of the para locus, a sodium channel gene in Drosophila.}},
volume = {58},
year = {1989}
}

@article{Hemingway2016,
author = {Hemingway, Janet and Ranson, Hilary and Magill, Alan and Kolaczinski, Jan and Fornadel, Christen and Gimnig, John and Coetzee, Maureen and Simard, Frederic and Roch, Dabir{\'{e}} K. and Hinzoumbe, Cl{\'{e}}ment Kerah and Pickett, John and Schellenberg, David and Gething, Peter and Hopp{\'{e}}, Mark and Hamon, Nicholas},
doi = {10.1016/S0140-6736(15)00417-1},
issn = {1474547X},
journal = {The Lancet},
number = {10029},
pages = {1785--1788},
title = {{Averting a malaria disaster: Will insecticide resistance derail malaria control?}},
volume = {387},
year = {2016}
}

@article{Jones2012,
author = {Jones, Christopher M and Liyanapathirana, Milindu and Agossa, Fiacre R and Weetman, David and Ranson, Hilary and Donnelly, Martin James and Wilding, Craig S},
doi = {10.1073/pnas.1201475109},
issn = {1091-6490},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
keywords = {Animals,Anopheles gambiae,Anopheles gambiae: genetics,Genetic,Haplotypes,Homozygote,Insecticide Resistance,Ion Channel Gating,Mutation,Selection,Sodium Channels,Sodium Channels: physiology},
number = {17},
pages = {6614--9},
title = {{Footprints of positive selection associated with a mutation (N1575Y) in the voltage-gated sodium channel of Anopheles gambiae.}},
url = {http://www.pnas.org/content/109/17/6614.short},
volume = {109},
year = {2012}
}

@article{Giraldo-Calderon2015,
author = {Giraldo-Calderon, Gloria I. and Emrich, Scott J. and MacCallum, Robert M. and Maslen, Gareth and Emrich, Scott and Collins, Frank and Dialynas, Emmanuel and Topalis, Pantelis and Ho, Nicholas and Gesing, Sandra and Madey, Gregory and Collins, Frank H. and Lawson, Daniel and Kersey, Paul and Allen, James and Christensen, Mikkel and Hughes, Daniel and Koscielny, Gautier and Langridge, Nick and Gallego, Ernesto Lowy and Megy, Karine and Wilson, Derek and Gelbart, Bill and Emmert, Dave and Russo, Susan and Zhou, Pinglei and Christophides, George and Brockman, Andrew and Kirmitzoglou, Ioannis and MacCallum, Bob and Tiirikka, Timo and Louis, Kitsos and Dritsou, Vicky and Mitraka, Elvira and Werner-Washburn, Maggie and Baker, Phil and Platero, Harriet and Aguilar, Antelmo and Bogol, Steve and Campbell, Dave and Carmichael, Rory and Cieslak, David and Davis, Greg and Konopinski, Nathan and Nabrzyski, Jarek and Reinking, Caleb and Sheehan, Andrew and Szakonyi, Scott and Wieck, Robert},
doi = {10.1093/nar/gku1117},
issn = {13624962},
journal = {Nucleic Acids Research},
number = {D1},
pages = {D707--D713},
title = {{VectorBase: An updated Bioinformatics Resource for invertebrate vectors and other organisms related with human diseases}},
volume = {43},
year = {2015}
}

@article{Mathieson2014,
archivePrefix = {arXiv},
author = {Mathieson, Iain and McVean, Gil},
doi = {10.1371/journal.pgen.1004528},
eprint = {1401.4181},
issn = {15537404},
journal = {PLoS Genetics},
number = {8},
title = {{Demography and the Age of Rare Variants}},
volume = {10},
year = {2014}
}

@article{Foster2003,
author = {Foster, S P and Young, S and Williamson, M S and Duce, I and Denholm, I and Devine, G J},
doi = {10.1038/sj.hdy.6800285},
issn = {0018067X},
journal = {Heredity},
keywords = {behaviour,gene amplification,insecticide resistance,pleiotropy,point mutation},
number = {2},
pages = {98--106},
title = {{Analogous pleiotropic effects of insecticide resistance genotypes in peach-potato aphids and houseflies.}},
volume = {91},
year = {2003}
}

@article{Martinez-Torres1998,
author = {Martinez-Torres, D. and Chandre, F. and Williamson, M. S. and Darriet, F. and Berg{\'{e}}, J. B. and Devonshire, A. L. and Guillet, P. and Pasteur, N. and Pauron, D.},
doi = {10.1046/j.1365-2583.1998.72062.x},
issn = {09621075},
journal = {Insect Molecular Biology},
keywords = {Diagnostic,Mosquito,Pyrethroid,Resistance},
number = {2},
pages = {179--184},
title = {{Molecular characterization of pyrethroid knockdown resistance (kdr) in the major malaria vector Anopheles gambiae s.s.}},
volume = {7},
year = {1998}
}

@article{Messer2013,
author = {Messer, Philipp W. and Petrov, Dmitri A.},
doi = {10.1016/j.tree.2013.08.003},
issn = {01695347},
journal = {Trends in Ecology and Evolution},
number = {11},
pages = {659--669},
title = {{Population genomics of rapid adaptation by soft selective sweeps}},
volume = {28},
year = {2013}
}

@misc{Miles2016,
author = {Miles, Alistair and Harding, Nicholas},
doi = {10.5281/zenodo.59266},
title = {{scikit-allel: A Python package for exploring and analysing genetic variation data}},
url = {https://github.com/cggh/scikit-allel},
year = {2016}
}

@article{Dong2014,
author = {Dong, Ke and Du, Yuzhe and Rinkevich, Frank and Nomura, Yoshiko and Xu, Peng and Wang, Lingxin and Silver, Kristopher and Zhorov, Boris S.},
journal = {Insect Biochemistry and Molecular Biology},
doi = {10.1016/j.ibmb.2014.03.012},
issn = {09651748},
keywords = {Alternative splicing,Knockdown resistance,Pyrethroid receptor sites,Pyrethroids,RNA editing,Sodium channel},
number = {1},
pages = {1--17},
title = {{Molecular biology of insect sodium channels and pyrethroid resistance}},
volume = {50},
year = {2014}
}

@article{Delaneau2013,
author = {Delaneau, Olivier and Howie, Bryan and Cox, Anthony J. and Zagury, Jean Fran{\c{c}}ois and Marchini, Jonathan},
doi = {10.1016/j.ajhg.2013.09.002},
issn = {00029297},
journal = {American Journal of Human Genetics},
number = {4},
pages = {687--696},
title = {{Haplotype estimation using sequencing reads}},
volume = {93},
year = {2013}
}

@article{Bhatt2015,
archivePrefix = {arXiv},
author = {Bhatt, S. and Weiss, D. J. and Cameron, E. and Bisanzio, D. and Mappin, B. and Dalrymple, U. and Battle, K. E. and Moyes, C. L. and Henry, A. and Eckhoff, P. A. and Wenger, E. A. and Bri{\"{e}}t, O. and Penny, M. A. and Smith, T. A. and Bennett, A. and Yukich, J. and Eisele, T. P. and Griffin, J. T. and Fergus, C. A. and Lynch, M. and Lindgren, F. and Cohen, J. M. and Murray, C. L. J. and Smith, D. L. and Hay, S. I. and Cibulskis, R. E. and Gething, P. W.},
doi = {10.1038/nature15535},
eprint = {arXiv:1011.1669v3},
issn = {0028-0836},
journal = {Nature},
number = {7572},
pages = {207--211},
title = {{The effect of malaria control on Plasmodium falciparum in Africa between 2000 and 2015}},
url = {http://www.nature.com/doifinder/10.1038/nature15535},
volume = {526},
year = {2015}
}

@article{Bass2007,
author = {Bass, Chris and Nikou, Dimitra and Donnelly, Martin J and Williamson, Martin S and Ranson, Hilary and Ball, Amanda and Vontas, John and Field, Linda M},
doi = {10.1186/1475-2875-6-111},
issn = {1475-2875},
journal = {Malaria journal},
keywords = {Animals,Anopheles gambiae,Anopheles gambiae: drug effects,Anopheles gambiae: genetics,Fluorescence,Insect Proteins,Insect Proteins: genetics,Insect Vectors,Insect Vectors: drug effects,Insect Vectors: genetics,Insecticide Resistance,Point Mutation,Polymerase Chain Reaction,Polymerase Chain Reaction: economics,Polymerase Chain Reaction: methods,Pyrethrins,Pyrethrins: pharmacology,Sodium Channels,Sodium Channels: genetics,Transition Temperature},
pages = {111},
title = {{Detection of knockdown resistance ({\textless}i{\textgreater}kdr{\textless}/i{\textgreater}) mutations in {\textless}i{\textgreater}Anopheles gambiae{\textless}/i{\textgreater}: a comparison of two new high-throughput assays with existing methods.}},
url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1971715{\&}tool=pmcentrez{\&}rendertype=abstract},
volume = {6},
year = {2007}
}

@article{Cingolani2012,
author = {Cingolani, Pablo and Platts, Adrian and Wang, Le Lily and Coon, Melissa and Nguyen, Tung and Wang, Luan and Land, Susan J. and Lu, Xiangyi and Ruden, Douglas M.},
doi = {10.4161/fly.19695},
issn = {19336942},
journal = {Fly},
keywords = {Drosophila melanogaster,Next generation DNA sequencing,Personal genomes,Whole-genome SNP analysis},
number = {2},
pages = {80--92},
title = {{A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3}},
volume = {6},
year = {2012}
}

@article{Clarkson2014,
author = {Clarkson, Chris S. and Weetman, David and Essandoh, John and Yawson, Alexander E. and Maslen, Gareth and Manske, Magnus and Field, Stuart G. and Webster, Mark and Ant{\~{a}}o, Tiago and MacInnis, Bronwyn and Kwiatkowski, Dominic and Donnelly, Martin J.},
doi = {10.1038/ncomms5248},
issn = {2041-1723},
journal = {Nature Communications},
title = {{Adaptive introgression between Anopheles sibling species eliminates a major genomic island but not reproductive isolation}},
url = {http://www.nature.com/doifinder/10.1038/ncomms5248},
volume = {5},
year = {2014}
}

@article{Dao2014,
author = {Dao, A. and Yaro, A. S. and Diallo, M. and Timbin{\'{e}}, S. and Huestis, D. L. and Kassogu{\'{e}}, Y. and Traor{\'{e}}, A. I. and Sanogo, Z. L. and Samak{\'{e}}, D. and Lehmann, T.},
doi = {10.1038/nature13987},
issn = {0028-0836},
journal = {Nature},
number = {7531},
pages = {387--390},
title = {{Signatures of aestivation and migration in Sahelian malaria mosquito populations}},
url = {http://www.nature.com/doifinder/10.1038/nature13987},
volume = {516},
year = {2014}
}

@article{Bandelt1999,
author = {Bandelt, H. J. and Forster, P. and Rohl, A.},
doi = {10.1093/oxfordjournals.molbev.a026036},
issn = {0737-4038},
journal = {Molecular Biology and Evolution},
number = {1},
pages = {37--48},
title = {{Median-joining networks for inferring intraspecific phylogenies}},
url = {https://academic.oup.com/mbe/article-lookup/doi/10.1093/oxfordjournals.molbev.a026036},
volume = {16},
year = {1999}
}

@article{Davies2007a,
author = {Davies, T. G.E. and Field, L. M. and Usherwood, P. N.R. and Williamson, M. S.},
doi = {10.1111/j.1365-2583.2007.00733.x},
issn = {09621075},
journal = {Insect Molecular Biology},
keywords = {Knock-down resistance (kdr),Malaria,Mosquito,Pyrethroids,Voltage-gated sodium channel},
number = {3},
pages = {361--375},
title = {{A comparative study of voltage-gated sodium channels in the Insecta: Implications for pyrethroid resistance in Anopheline and other Neopteran species}},
volume = {16},
year = {2007}
}

@article{The1000GenomesProjectConsortium2010,
archivePrefix = {arXiv},
author = {{The 1000 Genomes Project Consortium}},
doi = {10.1038/nature09534},
eprint = {1302.2710v1},
issn = {1476-4687},
journal = {Nature},
keywords = {Calibration,Chromosomes,Computational Biology,DNA,DNA Mutational Analysis,DNA: methods,Evolution,Female,Genetic,Genetic Association Studies,Genetic Variation,Genetic Variation: genetics,Genetic: genetics,Genetics,Genome,Genome-Wide Association Study,Genomics,Genomics: methods,Genotype,Haplotypes,Haplotypes: genetics,Human,Human: genetics,Humans,Male,Mitochondrial,Mitochondrial: genetics,Molecular,Mutation,Mutation: genetics,Pilot Projects,Polymorphism,Population,Population: methods,Recombination,Sample Size,Selection,Sequence Alignment,Sequence Analysis,Single Nucleotide,Single Nucleotide: genetics,Y,Y: genetics},
number = {7319},
pages = {1061--73},
title = {{A map of human genome variation from population-scale sequencing.}},
url = {http://www.nature.com/nature/journal/v467/n7319/pdf/nature09534.pdf{\%}5Cnhttp://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=3042601{\&}tool=pmcentrez{\&}rendertype=abstract},
volume = {467},
year = {2010}
}

@article{Davies2007b,
author = {Davies, T. G. E. and Field, L. M. and Usherwood, P. N. R. and Williamson, M. S.},
doi = {10.1080/15216540701352042},
issn = {1521-6543},
journal = {IUBMB Life},
number = {3},
pages = {151--162},
title = {{DDT, pyrethrins, pyrethroids and insect sodium channels}},
url = {http://doi.wiley.com/10.1080/15216540701352042},
volume = {59},
year = {2007}
}

@article{Davies2007,
author = {Davies, T. G E and Field, L. M. and Usherwood, P. N R and Williamson, M. S.},
doi = {10.1111/j.1365-2583.2007.00733.x},
issn = {09621075},
journal = {Insect Molecular Biology},
keywords = {Knock-down resistance (kdr),Malaria,Mosquito,Pyrethroids,Voltage-gated sodium channel},
title = {{A comparative study of voltage-gated sodium channels in the Insecta: Implications for pyrethroid resistance in Anopheline and other Neopteran species}},
year = {2007}
}

@article{Williamson1996,
author = {Williamson, Martin S. and Martinez-Torres, David and Hick, Caroline A. and Devonshire, Alan L.},
doi = {10.1007/s004389670006},
issn = {00268925},
journal = {Molecular and General Genetics},
number = {1-2},
pages = {51--60},
title = {{Identification of mutations in the housefly para-type sodium channel gene associated with knockdown resistance (kdr) to pyrethroid insecticides}},
volume = {252},
year = {1996}
}

@article{Kilianski2015,
author = {Kilianski, Andy and Haas, Jamie L and Corriveau, Elizabeth J and Liem, Alvin T and Willis, Kristen L and Kadavy, Dana R and Rosenzweig, C Nicole and Minot, Samuel S},
doi = {10.1186/s13742-015-0051-z},
issn = {2047-217X},
journal = {GigaScience},
pages = {12},
title = {{Bacterial and viral identification and differentiation by amplicon sequencing on the MinION nanopore sequencer.}},
url = {http://www.ncbi.nlm.nih.gov/pubmed/25815165 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC4374364},
volume = {4},
year = {2015}
}

@article{Jain2016,
author = {Jain, Miten and Olsen, Hugh E. and Paten, Benedict and Akeson, Mark},
doi = {10.1186/s13059-016-1103-0},
issn = {1474-760X},
journal = {Genome Biology},
number = {1},
pages = {239},
title = {{The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community}},
url = {http://www.ncbi.nlm.nih.gov/pubmed/27887629 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC5124260 http://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-1103-0},
volume = {17},
year = {2016}
}

@article{Norris2015,
author = {Norris, Laura C. and Main, Bradley J. and Lee, Yoosook and Collier, Travis C. and Fofana, Abdrahamane and Cornel, Anthony J. and Lanzaro, Gregory C.},
doi = {10.1073/pnas.1418892112},
issn = {0027-8424},
journal = {Proceedings of the National Academy of Sciences},
pages = {201418892},
title = {{Adaptive introgression in an African malaria mosquito coincident with the increased usage of insecticide-treated bed nets}},
url = {http://www.pnas.org/content/early/2015/01/02/1418892112},
year = {2015}
}

@article{Murray2015,
author = {Murray, D{\'{a}}ith{\'{i}} C and Coghlan, Megan L and Bunce, Michael},
doi = {10.1371/journal.pone.0124671},
issn = {1932-6203},
journal = {PloS one},
number = {4},
pages = {e0124671},
title = {{From benchtop to desktop: important considerations when designing amplicon sequencing workflows.}},
url = {http://www.ncbi.nlm.nih.gov/pubmed/25902146 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC4406758},
volume = {10},
year = {2015}
}

@article{Bybee2011,
author = {Bybee, Seth M and Bracken-Grissom, Heather and Haynes, Benjamin D and Hermansen, Russell A and Byers, Robert L and Clement, Mark J and Udall, Joshua A and Wilcox, Edward R and Crandall, Keith A},
doi = {10.1093/gbe/evr106},
issn = {1759-6653},
journal = {Genome biology and evolution},
pages = {1312--23},
title = {{Targeted amplicon sequencing (TAS): a scalable next-gen approach to multilocus, multitaxa phylogenetics.}},
url = {http://www.ncbi.nlm.nih.gov/pubmed/22002916 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC3236605},
volume = {3},
year = {2011}
}

@book{Breiman1984,
author = {Breiman, L and Friedman, J H and Olshen, R A and Stone, C J},
isbn = {0412048418},
pages = {368},
title = {{Classification and Regression Trees}},
volume = {19},
year = {1984}
}

@article{Quinlan1986,
author = {Quinlan, J. R.},
doi = {10.1007/BF00116251},
issn = {0885-6125},
journal = {Machine Learning},
number = {1},
pages = {81--106},
title = {{Induction of decision trees}},
url = {http://link.springer.com/10.1007/BF00116251},
volume = {1},
year = {1986}
}

@article{Yoon2008,
author = {Yoon, Kyong Sup and Kwon, Deok Ho and Strycharz, Joseph P and Hollingsworth, Craig S and Lee, Si Hyeock and Clark, John Marshall},
doi = {10.1603/0022-2585(2008)45[1092:BAMAOD]2.0.CO;2},
issn = {0022-2585},
journal = {Journal of Medical Entomology},
keywords = {bed bug,deltamethrin resistance,kdr,knockdown resistance,voltage-sensitive},
number = {6},
pages = {1092--1101},
title = {{Biochemical and molecular analysis of deltamethrin resistance in the common bed bug (Hemiptera: Cimicidae)}},
volume = {45},
year = {2008}
}

@article{Smith1997,
author = {Smith, M R and Goldin, a L},
doi = {10.1016/S0006-3495(97)78219-5},
issn = {0006-3495},
journal = {Biophysical journal},
number = {4},
pages = {1885--1895},
title = {{Interaction between the sodium channel inactivation linker and domain III S4-S5.}},
url = {http://dx.doi.org/10.1016/S0006-3495(97)78219-5},
volume = {73},
year = {1997}
}

@article{SiHyeockLee2001,
author = {{Si Hyeock Lee} and Soderlund, D. M.},
doi = {10.1016/S0965-1748(00)00089-8},
issn = {09651748},
journal = {Insect Biochemistry and Molecular Biology},
keywords = {Batrachotoxin,Insecticide,Musca domestica,Pyrethroid,Resistance,Voltage-sensitive sodium channel},
number = {1},
pages = {19--29},
title = {{The V410M mutation associated with pyrethroid resistance in Heliothis virescens reduces the pyrethroid sensitivity of house fly sodium channels expressed in Xenopus oocytes}},
volume = {31},
year = {2001}
}

@article{Park1997,
author = {Park, Y and Taylor, M F and Feyereisen, R},
doi = {S0006-291X(97)97511-2 [pii]\n10.1006/bbrc.1997.7511},
issn = {0006-291X},
journal = {Biochem Biophys Res Commun},
keywords = {*Mutation,*Pyrethrins,Amino Acid,Amino Acid Sequence,Animals,Base Sequence,DNA Transposable Elements/*genetics,Haplotypes,Insecticide Resistance,Ion Channel Gating/genetics,Linkage (Genetics),Methionine/*genetics,Molecular Sequence Data,Moths/drug effects/*genetics,Polymorphism,Restriction Fragment Length,Sequence Homology,Sodium Channels/chemistry/*genetics,Valine/*genetics},
number = {3},
pages = {688--691},
title = {{A valine421 to methionine mutation in IS6 of the hscp voltage-gated sodium channel associated with pyrethroid resistance in Heliothis virescens F}},
url = {http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve{\&}db=PubMed{\&}dopt=Citation{\&}list{\_}uids=9367829},
volume = {239},
year = {1997}
}

@article{Hopkins2010,
author = {Hopkins, B. W. and Pietrantonio, P. V.},
doi = {10.1016/j.ibmb.2010.03.004},
issn = {09651748},
journal = {Insect Biochemistry and Molecular Biology},
number = {5},
pages = {385--393},
title = {{The Helicoverpa zea (Boddie) (Lepidoptera: Noctuidae) voltage-gated sodium channel and mutations associated with pyrethroid resistance in field-collected adult males}},
volume = {40},
year = {2010}
}

@article{Burton2011,
  title={Differential resistance of insect sodium channels with kdr mutations to deltamethrin, permethrin and DDT},
  author={Burton, M J and Mellor, I R and Duce, I R and Davies, T G E and Field, L M and Williamson, M S},
  journal={Insect Biochemistry and Molecular Biology},
  volume={41},
  number={9},
  pages={723--732},
  year={2011},
}

@article{Wang2015,
  title={A mutation in the intracellular loop III/IV of mosquito sodium channel synergizes the effect of mutations in helix IIS6 on pyrethroid resistance},
  author={Wang, L and Nomura, Y and Du, Y and Liu, N and Zhorov, B S and Dong, K},
  journal={Molecular Pharmacology},
  volume={87},
  number={3},
  pages={421--429},
  year={2015},
}

@article{Chandre2000,
  title={Modifications of pyrethroid effects associated with kdr mutation in Anopheles gambiae},
  author={Chandre, F and Darriet, F and Duchon, S and Finot, L and Manguin, S and Carnevale, P and Guillet, P},
  journal={Medical and Veterinary Entomology},
  volume={14},
  number={1},
  pages={81--88},
  year={2000},
}

@article{Haddi2017,
  title={Detection of a new pyrethroid resistance mutation (V410L) in the sodium channel of Aedes aegypti: a potential challenge for mosquito control},
  author={Haddi, Khalid and Tom{\'e}, Hudson VV and Du, Yuzhe and Valbon, Wilson R and Nomura, Yoshiko and Martins, Gustavo F and Dong, Ke and Oliveira, Eug{\^e}nio E},
  journal={Scientific Reports},
  volume={7},
  year={2017},
}

@book{Dunlap1981,
  title={DDT: scientists, citizens, and public policy},
  author={Dunlap, Thomas},
  year={1981},
  publisher={Princeton University Press}
}

@article{Turusov2002,
  title={Dichlorodiphenyltrichloroethane (DDT): ubiquity, persistence, and risks.},
  author={Turusov, Vladimir and Rakitsky, Valery and Tomatis, Lorenzo},
  journal={Environmental health perspectives},
  volume={110},
  number={2},
  pages={125},
  year={2002},
}

@article{Hu2011,
  title={A sodium channel mutation identified in Aedes aegypti selectively reduces cockroach sodium channel sensitivity to type I, but not type II pyrethroids},
  author={Hu, Zhaonong and Du, Yuzhe and Nomura, Yoshiko and Dong, Ke},
  journal={Insect biochemistry and molecular biology},
  volume={41},
  number={1},
  pages={9--13},
  year={2011},
}

@article{Du2013,
  title={Molecular evidence for dual pyrethroid-receptor sites on a mosquito sodium channel},
  author={Du, Yuzhe and Nomura, Yoshiko and Satar, Gul and Hu, Zhaonong and Nauen, Ralf and He, Sheng Yang and Zhorov, Boris S and Dong, Ke},
  journal={Proceedings of the National Academy of Sciences},
  volume={110},
  number={29},
  pages={11785--11790},
  year={2013},
  publisher={National Acad Sciences}
}

@article{Xu2016,
  title={Multi-country survey revealed prevalent and novel F1534S mutation in voltage-gated sodium channel (VGSC) gene in Aedes albopictus},
  author={Xu, Jiabao and Bonizzoni, Mariangela and Zhong, Daibin and Zhou, Guofa and Cai, Songwu and Li, Yiji and Wang, Xiaoming and Lo, Eugenia and Lee, Rebecca and Sheen, Roger and others},
  journal={PLoS neglected tropical diseases},
  volume={10},
  number={5},
  pages={e0004696},
  year={2016},
  publisher={Public Library of Science}
}

@article{Li2018,
  title={Evidence for multiple-insecticide resistance in urban Aedes albopictus populations in southern China},
  author={Li, Yiji and Xu, Jiabao and Zhong, Daibin and Zhang, Hong and Yang, Wenqiang and Zhou, Guofa and Su, Xinghua and Wu, Yang and Wu, Kun and Cai, Songwu and others},
  journal={Parasites \& vectors},
  volume={11},
  number={1},
  pages={4},
  year={2018},
  publisher={BioMed Central}
}

@article{Lewontin1964,
        title = {The Interaction of Selection and Linkage. I. General Considerations; Heterotic Models},
        volume = {49},
        issn = {0016-6731},
        url = {https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1210557/},
        pages = {49--67},
        number = {1},
        journal = {Genetics},
        author = {Lewontin, R. C.},
        year = {1964},
}

@article{Pedregosa2011,
 title={Scikit-learn: Machine Learning in {P}ython},
 author={Pedregosa, F. and Varoquaux, G. and Gramfort, A. and Michel, V.
         and Thirion, B. and Grisel, O. and Blondel, M. and Prettenhofer, P.
         and Weiss, R. and Dubourg, V. and Vanderplas, J. and Passos, A. and
         Cournapeau, D. and Brucher, M. and Perrot, M. and Duchesnay, E.},
 journal={Journal of Machine Learning Research},
 volume={12},
 pages={2825--2830},
 year={2011}
}

@article{Abuelmaali2013,
  title={Impacts of agricultural practices on insecticide resistance in the malaria vector Anopheles arabiensis in Khartoum State, Sudan},
  author={Abuelmaali, Sara A and Elaagip, Arwa H and Basheer, Mohammed A and Frah, Ehab A and Ahmed, Fayez TA and Elhaj, Hassabelrasoul FA and Seidahmed, Osama ME and Weetman, David and Hamid, Muzamil Mahdi Abdel},
  journal={PLoS One},
  volume={8},
  number={11},
  pages={e80549},
  year={2013},
  publisher={Public Library of Science}
}

@article{Reid2016,
  title={The contribution of agricultural insecticide use to increasing insecticide resistance in African malaria vectors},
  author={Reid, Molly C and McKenzie, F Ellis},
  journal={Malaria journal},
  volume={15},
  number={1},
  pages={107},
  year={2016},
  publisher={BioMed Central}
}

@article{Ranson2016,
  title={Insecticide resistance in African Anopheles mosquitoes: a worsening situation that needs urgent action to maintain malaria control},
  author={Ranson, Hilary and Lissenden, Natalie},
  journal={Trends in parasitology},
  volume={32},
  number={3},
  pages={187--196},
  year={2016},
  publisher={Elsevier}
}

@article{Ishak2015,
  title={Contrasting patterns of insecticide resistance and knockdown resistance (kdr) in the dengue vectors Aedes aegypti and Aedes albopictus from Malaysia},
  author={Ishak, Intan H and Jaal, Zairi and Ranson, Hilary and Wondji, Charles S},
  journal={Parasites \& vectors},
  volume={8},
  number={1},
  pages={181},
  year={2015},
  publisher={BioMed Central}
}