High-density sex-specific linkage maps of a European tree frog (Hyla arborea) identify the sex chromosome without information on offspring sex

Heredity

Volumn 116, Issue 2, 2016, Pages 177-181

  Brelsford, A ^a,b   Dufresnes, C ^a   Perrin, N ^a  

^a UNIVERSITY OF LAUSANNE   (Switzerland)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHROMOSOME; CYTOGENETICS; FROG; GENETIC ANALYSIS; GENETIC MARKER; HOMOLOGY; RECOMBINATION; SEX DETERMINATION;

EUROPE;

ANURA; HYLA ARBOREA; XENOPUS TROPICALIS;

ANIMAL; ANURA; CHROMOSOMAL MAPPING; DNA SEQUENCE; EVOLUTION; FEMALE; GENETIC LINKAGE; GENETIC RECOMBINATION; GENETICS; GENOTYPE; MALE; SEX CHROMOSOME; SYNTENY; XENOPUS;

ANIMALS; ANURA; BIOLOGICAL EVOLUTION; CHROMOSOME MAPPING; FEMALE; GENETIC LINKAGE; GENOTYPE; MALE; RECOMBINATION, GENETIC; SEQUENCE ANALYSIS, DNA; SEX CHROMOSOMES; SYNTENY; XENOPUS;

EID: 84955198925     PISSN: 0018067X     EISSN: 13652540     Source Type: Journal    
DOI: 10.1038/hdy.2015.83     Document Type: Article

References (43)

1. Aris-Brosou S, Yang Z. (2002). Effects of models of rate evolution on estimation of divergence dates with special reference to the metazoan 18S ribosomal RNA phylogeny. Syst Biol 51: 703-714
2. Bachtrog D. (2013). Y-chromosome evolution: emerging insights into processes of Y-chromosome degeneration. Nat Rev Genet 14: 113-124
3. Berset-Brändli L, Jaquiéry J, Broquet T, Ulrich Y, Perrin N. (2008). Extreme heterochiasmy and nascent sex chromosomes in European tree frogs. Proc R Soc B 275: 1577-1585
4. Beukeboom LW, Perrin N. (2014). The Evolution of Sex Determination. Oxford University Press: Oxford
5. Brelsford A, Stöck M, Betto-Colliard C, Dubey S, Dufresnes C, Jourdan-Pineau H et al. (2013). Homologous sex chromosomes in three deeply divergent anuran species. Evolution 67: 2434-2440
6. Cano JM, Li M-H, Laurila A, Vilkki J, Merilä J. (2011). First-generation linkage map for the common frog Rana temporaria reveals sex-linkage group. Heredity 107: 530-536
7. Catchen J, Hohenlohe PA, Bassham S, Amores A, Cresko WA. (2013). Stacks: an analysis tool set for population genomics. Mol Ecol 22: 3124-3140
8. Chen S, Zhang G, Shao C, Huang Q, Liu G, Zhang P et al. (2014). Whole-genome sequence of a flatfish provides insights into ZW sex chromosome evolution and adaptation to a benthic lifestyle. Nat Genet 46: 253-260
9. Cutter AD, Payseur B. (2013). Genomic signatures of selection at linked sites: unifying the disparity among species. Nat Rev Genet 14: 262-274
10. Danecek P, Auton A, Abecasis G, Albers CA, Banks E, DePristo MA et al. (2011). The variant call format and VCFtools. Bioinformatics 27: 2156-2158
11. Dufresnes C, Brelsford A, Perrin N. (2014). First-generation linkage map for the European tree frog (Hyla arborea) with utility in congeneric species. BMC Res Notes 7: 850
12. Dufresnes C, Bertholet Y, Wassef J, Ghali K, Savary R, Pasteur B et al. (2014). Sex-chromosome differentiation parallels postglacial range expansion in European tree frogs (Hyla arborea). Evolution 68: 3445-3456
13. Gadau J, Gerloff CU, Krüger N, Chan H, Schmid-Hempel P, Wille A et al. (2001). A linkage analysis of sex determination in Bombus terrestris (L) (Hymenoptera: Apidae). Heredity 87: 234-242
14. Gamble T, Geneva AJ, Glor RE, Zarkower D. (2014). Anolis sex chromosomes are derived from a single ancestral pair. Evolution 68: 1027-1041
15. Gamble T, Zarkower D. (2014). Identification of sex-specific molecular markers using restriction site associated DNA sequencing. Mol Ecol Resour 14: 902-913
16. Graves JAM, Peichel CL. (2010). Are homologies in vertebrate sex determination due to shared ancestry or limited options?. Genome Biol 11: 205
17. Griffin DK, Robertson LB, Tempest HG, Skinner BM. (2006). The evolution of the avian genome as revealed by comparative molecular cytogenetics. Cytogenet Genome Res 117: 64-77
18. Haldane JBS. (1922). Sex ratio and unisexual sterility in hybrid animals. J Genet 12: 101-109
19. Huxley JS. (1928). Sexual differences of linkage in Gammarus chevreuxi. J Genet 20: 145-156
20. Langmead B, Salzberg SL. (2012). Fast gapped-read alignment with Bowtie 2. Nat Methods 9: 357-359
21. Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N et al. (2009). The sequence alignment/map format and SAMtools. Bioinformatics 25: 2078-2079
22. Mank JE. (2009). The evolution of heterochiasmy: the role of sexual selection and sperm competition in determining sex-specific recombination rates in eutherian mammals. Genet Res 91: 355-363
23. Miura I. (2007). An evolutionary witness: the frog Rana rugosa underwent change of heterogametic sex from XY male to ZW female. Sex Dev 1: 323-331
24. Morescalchi A, Galgano M. (1973). Meiotic chromosomes and their taxonomic value in Amphibia Anura. Caldasia 11: 41-50
25. Nanda I, Schories S, Tripathi N, Dreyer C, Haaf T, Schmid M et al. (2014). Sex chromosome polymorphism in guppies. Chromosoma 123: 373-383
26. Nishioka M, Sumida M. (1994). The differences in recombination rate between the male and female in Rana nigromaculata and Rana brevipoda. Sci Rep Lab Amphibian Biol Hiroshima Univ 13: 99-136
27. Ohno S. (1967). Sex Chromosomes and Sex Linked Genes. Springer-Verlag: New York
28. O'Meally D, Ezaz T, Georges A, Sarre SD, Graves JAM. (2012). Are some chromosomes particularly good at sex?. Insights from amniotes. Chromosome Res 20: 7-19
29. Parchman TL, Gompert Z, Mudge J, Schilkey FD, Benkman CW, Buerkle C. (2012). Genome-wide association genetics of an adaptive trait in lodgepole pine. Mol Ecol 21: 2991-3005
30. Pease JB, Hahn MW. (2012). Sex chromosomes evolved from independent ancestral linkage groups in winged insects. Mol Biol Evol 29: 1645-1653
31. Perrin N. (2009). Sex reversal: a fountain of youth for sex chromosomes?. Evolution 63: 3043-3049
32. Peterson BK, Weber JN, Kay EH, Fisher HS, Hoekstra HE. (2012). Double digest RADseq: an inexpensive method for de novo SNP discovery and genotyping in model and non-model species. PLoS One 7: e37135
33. Purcell J, Brelsford A, Wurm Y, Perrin N, Chapuisat M. (2014). Convergent genetic architecture underlies social organization in ants. Curr Biol 24: 2728-2732
34. Rodrigues N, Betto-Colliard C, Jourdan-Pineau H, Perrin N. (2013). Within-population polymorphism of sex-determination systems in the common frog (Rana temporaria). J Evol Biol 26: 1569-1577
35. Srikulnath K, Matsubara K, Uno Y, Nishida C, Olsson M, Matsuda Y. (2014). Identification of the linkage group of the Z sex chromosomes of the sand lizard (Lacerta agilis, Lacertidae) and elucidation of karyotype evolution in lacertid lizards. Chromosoma 123: 563-575
36. Stapley J, Birkhead TR, Burke T, Slate J. (2008). A linkage map of the zebra finch Taeniopygia guttata provides new insights into avian genome evolution. Genetics 179: 651-667
37. Stöck M, Horn A, Grossen C, Lindtke D, Sermier R, Betto-Colliard C et al. (2011). Ever-young sex chromosomes in European tree frogs. PLoS Biol 9: e1001062
38. Stöck M, Savary R, Betto-Colliard C, Biollay S, Jourdan-Pineau H, Perrin N. (2013). Low rates of X-Y recombination, not turnovers, account for homomorphic sex chromosomes in several diploid species of Palearctic green toads (Bufo viridis subgroup). J Evol Biol 26: 674-682
39. Sumida M, Nishioka M. (1994). A pronounced sex difference when two linked loci of the Japanese brown frog Rana japonica are recombined. Biochem Genet 32: 361-369
40. Sun YB, Xiong ZJ, Xiang XY, Liu SP, Zhou WW, Tu XL et al. (2015). Whole-genome sequence of the Tibetan frog Nanorana parkeri and the comparative evolution of tetrapod genomes. Proc Natl Acad Sci USA 112: E1257-E1262
41. Wells DE, Gutierrez L, Xu Z, Krylov V, Macha J, Blankenburg KP et al. (2011). A genetic map of Xenopus tropicalis. Dev Biol 354: 1-8
42. Wiens JJ. (2007). Global patterns of diversification and species richness in amphibians. Am Nat 170: S86-S106
43. Wu Y, Bhat PR, Close TJ, Lonardi S. (2008). Efficient and accurate construction of genetic linkage maps from the minimum spanning tree of a graph. PLoS Genet 4: e1000212