[1] | Verhulst EC, van de Zande L, Beukeboom LW. Insect sex determination: it all evolves around transformer. Curr Opin Genet Dev. 2010;20: 376–383. doi: 10.1016/j.gde.2010.05.001. pmid:20570131
|
[2] | Beukeboom LW, Perrin N. The evolution of sex determination. Oxford University Press; 2014.
|
[3] | Crozier RH. Heterozygosity and sex determination in haplo-diploidy. Am Nat. 1971;105: 399–412. doi: 10.2307/2459509.
|
[4] | Zayed A, Packer L, Michener CD. Complementary sex determination substantially increases extinction proneness of haplodiploid populations. Proc Natl Acad Sci USA. 2005;102: 10742–10746. doi: 10.2307/3376153. pmid:16020532
|
[5] | Conover DO, Van Voorhees DA, Ehtisham A. Sex ratio selection and the evolution of environmental sex determination in laboratory populations of Menidia menidia. Evolution. 1992;46: 1722–1730. doi: 10.2307/2410026.
|
[6] | Rigaud T, Juchault P, Mocquard JP. The evolution of sex determination in isopod crustaceans. Bioessays. 1997. doi: 10.1002/bies.950190508
|
[7] | Bachtrog D, Mank JE, Peichel CL, Kirkpatrick M, Otto SP, Ashman T-L, et al. Sex determination: why so many ways of doing it? PLoS Biol. 2014;12: e1001899. doi: 10.1371/journal.pbio.1001899. pmid:24983465
|
[8] | Heimpel GE, de Boer JG. Sex determination in the hymenoptera. Annu Rev Entomol. 2008;53: 209–230. doi: 10.1146/annurev.ento.53.103106.093441. pmid:17803453
|
[9] | Cline TW, Meyer BJ. Vive la difference: males vs females in flies vs worms. Annu Rev Genet. 1996;30: 637–702. doi: 10.1146/annurev.genet.30.1.637. pmid:8982468
|
[10] | Molbo D, Parker ED. Mating structure and sex ratio variation in a natural population of Nasonia vitripennis. Proc R Soc Lond B Biol. 1996;263: 1703–1709. doi: 10.1098/rspb.1996.0249.
|
[11] | Beukeboom LW, van de Zande L. Genetics of sex determination in the haplodiploid wasp Nasonia vitripennis (Hymenoptera: Chalcidoidea). J Genet. 2010;89: 333–339. pmid:20877000 doi: 10.1007/s12041-010-0045-7
|
[12] | Hasselmann M, Gempe T, Schi?tt M, Nunes-Silva CG, Otte M, Beye M. Evidence for the evolutionary nascence of a novel sex determination pathway in honeybees. Nature. 2008;454: 519–522. doi: 10.1038/nature07052. pmid:18594516
|
[13] | Privman E, Wurm Y, Keller L. Duplication and concerted evolution in a master sex determiner under balancing selection. Proc R Soc Lond B Biol. 2013;280: 20122968. doi: 10.1098/rspb.2012.2968.
|
[14] | Schmieder S, Colinet D, Poirié M. Tracing back the nascence of a new sex-determination pathway to the ancestor of bees and ants. Nat Comm. 2012;3: 895. doi: 10.1038/ncomms1898.
|
[15] | Huang Y-C, Nipitwattanaphon M, Lee C-C, Wang J. Mapping a novel sex determination gene in ants. IUSSI Congress, Cairns; 2014. p. 197.
|
[16] | Koch V, Nissen I, Schmitt BD, Beye M. Independent evolutionary origin of fem paralogous genes and complementary sex determination in hymenopteran insects. PLoS ONE. 2014;9: e91883. doi: 10.1371/journal.pone.0091883. pmid:24743790
|
[17] | Biewer M, Schlesinger F, Hasselmann M. The evolutionary dynamics of major regulators for sexual development among Hymenoptera species. Front Genet; 2015;6: 124. doi: 10.3389/fgene.2015.00124. pmid:25914717
|
[18] | Schmidt AM, Linksvayer TA, Boomsma JJ, Pedersen JS. No benefit in diversity? The effect of genetic variation on survival and disease resistance in a polygynous social insect. Ecol Entomol. 2011;36: 751–759. doi: 10.1111/j.1365-2311.2011.01325.x.
|
[19] | Schrempf A, Aron S, Heinze J. Sex determination and inbreeding depression in an ant with regular sib-mating. Heredity. 2006;97: 75–80. doi: 10.1038/sj.hdy.6800846. pmid:16705320
|
[20] | Kobayashi K, Hasegawa E, Ohkawara K. Clonal reproduction by males of the ant Vollenhovia emeryi (Wheeler). Entomol Sci. 2008. doi: 10.1111/j.1479-8298.2008.00272.x/pdf.
|
[21] | Ohkawara K, Nakayama M, Satoh A, Trindl A, Heinze J. Clonal reproduction and genetic caste differences in a queen-polymorphic ant, Vollenhovia emeryi. Biol Let. 2006;2: 359–363. doi: 10.1098/rsbl.2006.0491.
|
[22] | Okamoto M, Kobayashi K, Hasegawa E, Ohkawara K. Sexual and asexual reproduction of queens in a myrmicine ant, Vollenhovia emeryi (Hymenoptera: Formicidae). Myrmecol News. 2015;21: 13–17.
|
[23] | Kinomura K, Yamauchi K. Frequent occurrence of gynandromorphs in the natural population of the ant Vollenhovia emeryi (Hymenoptera: Formicidae). Insect Soc. 1994;41: 273–278. doi: 10.1007/bf01242298
|
[24] | Smith CR, Helms Cahan S, Kemena C, Brady SG, Yang W, Bornberg-Bauer E, et al. How do genomes create novel phenotypes? Insights from the loss of the worker caste in ant social parasites. Mol Biol Evol. 2015. in press. doi: 10.1093/molbev/msv165
|
[25] | Imai HT. The chromosome observation techniques of ants and the chromosomes of Formicinae and Myrmicinae. Act Hymenop. 1966; 2: 119–131
|
[26] | Hasselmann M, Lechner S, Schulte C, Beye M. Origin of a function by tandem gene duplication limits the evolutionary capability of its sister copy. Proc Natl Acad Sci USA. 2010;107: 13378–13383. doi: 10.1073/pnas.1005617107. pmid:20624976
|
[27] | Beye M, Hasselmann M, Fondrk MK, Page RE Jr, Omholt SW. The gene csd is the primary signal for sexual development in the honeybee and encodes an SR-type protein. Cell. 2003;114: 419–429. pmid:12941271 doi: 10.1016/s0092-8674(03)00606-8
|
[28] | Misof B, Liu S, Meusemann K, Peters RS, Donath A, Mayer C, et al. Phylogenomics resolves the timing and pattern of insect evolution. Science. 2014;346: 763–767. doi: 10.1126/science.1257570. pmid:25378627
|
[29] | Privman E, Wurm Y, Keller L. Duplication and concerted evolution in a master sex determiner under balancing selection. Proc R Soc Lond B Biol. 2013;280: 20122968–20122968. doi: 10.1098/rspb.2012.2968.
|
[30] | Crozier RH. Heterozygosity and sex determination in haplo-diploidy. Am Nat. 1971;105: 399–412. doi: 10.1086/282733
|
[31] | Ward PS, Brady SG, Fisher BL, Schultz TR. The evolution of myrmicine ants: phylogeny and biogeography of a hyperdiverse ant clade (Hymenoptera: Formicidae). System Entom. 2015;40: 61–81. doi: 10.1111/syen.12090.
|
[32] | Okamoto M, Ohkawara K. Egg production and caste allocation in the clonally reproductive ant Vollenhovia emeryi. Behav Ecol. 2010;21: 1005–1010. doi: 10.1093/beheco/arq093.
|
[33] | Kobayashi K, Hasegawa E, Ohkawara K. Clonal reproduction by males of the ant Vollenhovia emeryi (Wheeler). Entomol Sci. 2008;11: 167–172. doi: 10.1111/j.1479-8298.2008.00272.x.
|
[34] | Pearcy M, Goodisman MAD, Keller L. Sib mating without inbreeding in the longhorn crazy ant. Proc R Soc Lond B Biol. 2011;278: 2677–2681. doi: 10.1038/hdy.2009.169.
|
[35] | Rey O, Loiseau A, Facon B, Foucaud J, Orivel J, Cornuet J-M, et al. Meiotic recombination dramatically decreased in thelytokous queens of the little fire ant and their sexually produced workers. Mol Biol Evol. 2011;28: 2591–2601. doi: 10.1093/molbev/msr082. pmid:21459760
|
[36] | Oxley PR, Ji L, Fetter-Pruneda I, McKenzie SK, Li C, Hu H, et al. The genome of the clonal raider ant Cerapachys biroi. Curr Biol. 2014;24: 451–458. doi: 10.1016/j.cub.2014.01.018. pmid:24508170
|
[37] | Rabeling C, Kronauer DJC. Thelytokous parthenogenesis in eusocial Hymenoptera. Annu Rev Entomol. 2013;58: 273–292. doi: 10.1146/annurev-ento-120811-153710. pmid:23072461
|
[38] | Mikheyev A, Bresson S, Conant P. Single-queen introductions characterize regional and local invasions by the facultatively clonal little fire ant Wasmannia auropunctata. Mol Ecol. 2009;18: 2937–2944. doi: 10.1111/j.1365-294X.2009.04213.x. pmid:19538342
|
[39] | Miyakawa MO, Mikheyev AS. Males are here to stay: fertilization enhances viable egg production by clonal queens of the little fire ant (Wasmannia auropunctata). Sci Nat. 2015;102: 1–7. doi: 10.1007/s00114-015-1265-8.
|
[40] | de Boer JG, Ode PJ, Rendahl AK, Vet LEM, Whitfield JB, Heimpel GE. Experimental support for multiple-locus complementary sex determination in the parasitoid Cotesia vestalis. Genetics. 2008;180: 1525–1535. doi: 10.1534/genetics.107.083907. pmid:18791258
|
[41] | Ohkawara K, Ishii H, Fukushima Y, Yamauchi K, Heinze J. Queen polymorphism and reproductive behaviour in myrmicine ant. Proc XIV Int Congr IUSSI. 2002; p. 206.
|
[42] | Zhang J, Kobert K, Flouri T, Stamatakis A. PEAR: a fast and accurate Illumina Paired-End reAd mergeR. Bioinformatics. 2014;30: 614–620. doi: 10.1093/bioinformatics/btt593. pmid:24142950
|
[43] | Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, et al. Genome sequencing in microfabricated high-density picolitre reactors. Nature. 2005;437: 376–380. doi: 10.1038/nature03959. pmid:16056220
|
[44] | Boetzer M, Henkel CV, Jansen HJ, Butler D, Pirovano W. Scaffolding pre-assembled contigs using SSPACE. Bioinformatics. 2011;27: 578–579. doi: 10.1093/bioinformatics/btq683. pmid:21149342
|
[45] | Aird SD, Watanabe Y, Villar-Briones A, Roy MC, Terada K, Mikheyev AS. Quantitative high-throughput profiling of snake venom gland transcriptomes and proteomes (Ovophis okinavensis and Protobothrops flavoviridis). BMC Genomics. 2013;14: 790. doi: 10.1186/1471-2164-14-790. pmid:24224955
|
[46] | Thibaud-Nissen F, Souvorov A, Murphy T, DiCuccio M, Kitts P. Eukaryotic Genome Annotation Pipeline. The NCBI Handbook. 2nd ed. Bethesda, MD; 2013.
|
[47] | Tin MMY, Rheindt FE, Cros E, Mikheyev AS. Degenerate adaptor sequences for detecting PCR duplicates in reduced representation sequencing data improve genotype calling accuracy. Mol Ecol Res. 2014. doi: 10.1111/1755-0998.12314.
|
[48] | Langmead B, Salzberg SL. Fast gapped-read alignment with Bowtie 2. Nat Methods. 2012;9: 357–359. doi: 10.1038/nmeth.1923. pmid:22388286
|
[49] | Garrison E, Marth G. Haplotype-based variant detection from short-read sequencing. arXiv preprint. 2010.
|
[50] | Li H. A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data. Bioinformatics. 2011;27: 2987–2993. doi: 10.1093/bioinformatics/btr509. pmid:21903627
|
[51] | Broman KW, Wu H, Sen ?, Churchill GA. R/qtl: QTL mapping in experimental crosses. Bioinformatics. 2003;19: 889–890. doi: 10.1093/bioinformatics/btg112. pmid:12724300
|
[52] | Wu Y, Bhat PR, Close TJ, Lonardi S. Efficient and accurate construction of genetic linkage maps from the minimum spanning tree of a graph. Kruglyak L, editor. Plos Genet. Public Library of Science; 2008;4: e1000212. doi: 10.1371/journal.pgen.1000212. pmid:18846212
|
[53] | Van der Auwera GA, Carneiro MO, Hartl C, Poplin R, del Angel G, Levy Moonshine A, et al. From FastQ data to high confidence variant calls: the Genome Analysis Toolkit best practices pipeline. Curr Protoc Bioinformatics. Hoboken, NJ, USA: John Wiley & Sons, Inc; 2013;11: 11.10.1–11.10.33. doi: 10.1002/0471250953.bi1110s43.
|
[54] | Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, et al. Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics; 2012;28: 1647–1649. doi: 10.1093/bioinformatics/bts199. pmid:22543367
|
[55] | Katoh K, Misawa K, Kuma KI, Miyata T. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res. 2002;30: 3059–3066. doi: 10.1093/nar/gkf436. pmid:12136088
|
[56] | Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics. 2006;22: 2688–2690. doi: 10.1093/bioinformatics/btl446. pmid:16928733
|
[57] | Murrell B, Wertheim JO, Moola S, Weighill T, Scheffler K, Kosakovsky Pond SL. Detecting individual sites subject to episodic diversifying selection. Plos Genet. 2012;8: e1002764. doi: 10.1371/journal.pgen.1002764. pmid:22807683
|
[58] | Delport W, Poon AFY, Frost SDW, Kosakovsky Pond SL. Datamonkey 2010: a suite of phylogenetic analysis tools for evolutionary biology. Bioinformatics. 2010;26: 2455–2457. doi: 10.1093/bioinformatics/btq429. pmid:20671151
|
[59] | Foitzik S, Haberl M, Gadau J, Heinze J. Mating frequency of Leptothorax nylanderi ant queens determined by microsatellite analysis. Insect Soc. 1997;44: 219–227. doi: 10.1007/s000400050043
|
[60] | Hulce D, Li X, Snyder-Leiby T. GeneMarker genotyping software: tools to increase the statistical power of DNA fragment analysis. J Biomol Tech. 2011;22: S35.
|
[61] | Peakall R, Smouse PE. GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update. Bioinformatics. 2012;28: 2537–2539. doi: 10.1093/bioinformatics/bts460. pmid:22820204
|