Cetaceans evolution: insights from the genome sequences of common minke whales
详细信息 查看全文
- 作者：Jung Youn Park ; Yong-Rock An ; Naohisa Kanda ; Chul-Min An ; Hye Suck An…
- 关键词：Cetaceans ; Common minke whale ; Positive selection ; Genome
- 刊名：BMC Genomics
- 出版年：2015
- 出版时间：December 2015
- 年：2015
- 卷：16
- 期：1
- 全文大小：937 KB
- 参考文献：1. Dawkins R. The ancestor's tale: a pilgrimage to the dawn of evolution. Houghton Mifflin Harcourt; 2005
2. Reidenberg JS. Anatomical adaptations of aquatic mammals. Anat Rec. 2007;290(6):507-3. CrossRef
3. Thewissen J, Cooper LN, George JC, Bajpai S. From land to water: the origin of whales, dolphins, and porpoises. Evol: Educ Outreach. 2009;2(2):272-8.
4. Heyning JE. Thermoregulation in feeding baleen whales: Morphological and physiological evidence. Aquat Mammals. 2001;27(3):284-.
5. Deméré TA, McGowen MR, Berta A, Gatesy J. Morphological and molecular evidence for a stepwise evolutionary transition from teeth to baleen in mysticete whales. Syst Biol. 2008;57(1):15-7. CrossRef
6. Uhen MD. The origin (s) of whales. Annu Rev Earth Planet Sci. 2010;38:189-19. CrossRef
7. Werth A. Feeding in marine mammals. In: Feeding: form, function and evolution in tetrapod vertebrates. New York: Academic; 2000. p. 475-14.
8. Yim H-S, Cho YS, Guang X, Kang SG, Jeong J-Y, Cha S-S, et al. Minke whale genome and aquatic adaptation in cetaceans. Nature genetics. 2014;46:88-2. CrossRef
9. Zhou X, Sun F, Xu S, Fan G, Zhu K, Liu X, et al. Baiji genomes reveal low genetic variability and new insights into secondary aquatic adaptations. Nature communications. 2013;4:2708.
10. Gnerre S, MacCallum I, Przybylski D, Ribeiro FJ, Burton JN, Walker BJ, et al. High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc Natl Acad Sci. 2011;108(4):1513-. CrossRef
11. Stanke M, Diekhans M, Baertsch R, Haussler D. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics. 2008;24(5):637-4. CrossRef
12. Altschul SF, Madden TL, Sch?ffer AA, Zhang J, Zhang Z, Miller W, et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 1997;25(17):3389-02. CrossRef
13. Langmead B, Salzberg SL. Fast gapped-read alignment with Bowtie 2. Nat Methods. 2012;9(4):357-. CrossRef
14. Reya T, Clevers H. Wnt signalling in stem cells and cancer. Nature. 2005;434(7035):843-0. CrossRef
15. Kishimoto J, Burgeson RE, Morgan BA. Wnt signaling maintains the hair-inducing activity of the dermal papilla. Genes Dev. 2000;14(10):1181-.
16. Hammond NL, Headon DJ, Dixon MJ. The Cell Cycle Regulator Protein 14-3-3[sigma] Is Essential for Hair Follicle Integrity and Epidermal Homeostasis. J Invest Dermatol. 2012;132(6):1543-3. CrossRef
17. Herron BJ, Liddell RA, Parker A, Grant S, Kinne J, Fisher JK, et al. A mutation in stratifin is responsible for the repeated epilation (Er) phenotype in mice. Nat Genet. 2005;37(11):1210-. CrossRef
18. Tatemoto K. Neuropeptide Y: complete amino acid sequence of the brain peptide. Proc Natl Acad Sci U S A. 1982;79(18):5485-. CrossRef
19. Bi S, Kim YJ, Zheng F. Dorsomedial hypothalamic NPY and energy balance control. Neuropeptides. 2012;46(6):309-4. CrossRef
20. Bi S. Role of dorsomedial hypothalamic neuropeptide Y in energy homeostasis. Peptides. 2007;28(2):352-. CrossRef
21. Gray TS, Morley JE. Neuropeptide Y: anatomical distribution and possible function in mammalian nervous system. Life Sci. 1986;38(5):389-01.
文摘
Background Whales have captivated the human imagination for millennia. These incredible cetaceans are the only mammals that have adapted to life in the open oceans and have been a source of human food, fuel and tools around the globe. The transition from land to water has led to various aquatic specializations related to hairless skin and ability to regulate their body temperature in cold water. Results We present four common minke whale (Balaenoptera acutorostrata) genomes with depth of??3?~??7 coverage and perform resequencing technology without a reference sequence. Our results indicated the time to the most recent common ancestors of common minke whales to be about 2.3574 (95% HPD, 1.1521 -3.9212) million years ago. Further, we found that genes associated with epilation and tooth-development showed signatures of positive selection, supporting the morphological uniqueness of whales. Conclusions This whole-genome sequencing offers a chance to better understand the evolutionary journey of one of the largest mammals on earth.