Genomic basis of ecological niche divergence among cryptic sister species of non-biting midges.
Genomic basis of ecological niche divergence among cryptic sister species of non-biting midges.
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DOI：
10.1186/1471-2164-14-384
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发表时间：
2013-06-10
期刊：
影响因子：
4.4
通讯作者：
Pfenninger M
中科院分区：
文献类型：
--
作者：
Schmidt H;Greshake B;Feldmeyer B;Hankeln T;Pfenninger M
有一个缺乏理解的进化力量驱动生态位隔离密切相关的生物。此外，精确定位驱动生态分化的基因是分子生态学的一个关键目标。在这里，通过下一代测序获得的幼虫转录组序列被用来解决这些问题，在一个形态上神秘的姐妹物种对非叮咬蠓（摇蚊riparius和C。piger）。超过8000个正向开放阅读框被筛选用于种间趋异和种内多态性。尽管姐妹物种之间的平均序列差异为1.53%，但通过α统计推断，在观察到的18，115个氨基酸取代中，有25.1%是由正选择驱动的。应用McDonald-Kreitman检验对715个基因直向同源物进行比对，确定了11个（1.5%）由正选择驱动的基因。三个候选基因被确定为可能负责所观察到的生态位分离有关亚硝酸盐浓度，栖息地温度和水的电导率。此外，在硫化氢解毒途径中发现了正选择的迹象，为物种的生态分化提供了一个新的合理假设。最后，一个分歧选择，核编码的线粒体核糖体蛋白可能有助于生殖隔离由于细胞核的共同进化。
There is a lack of understanding the evolutionary forces driving niche segregation of closely related organisms. In addition, pinpointing the genes driving ecological divergence is a key goal in molecular ecology. Here, larval transcriptome sequences obtained by next-generation-sequencing are used to address these issues in a morphologically cryptic sister species pair of non-biting midges (Chironomus riparius and C. piger). More than eight thousand orthologous open reading frames were screened for interspecific divergence and intraspecific polymorphisms. Despite a small mean sequence divergence of 1.53% between the sister species, 25.1% of 18,115 observed amino acid substitutions were inferred by α statistics to be driven by positive selection. Applying McDonald-Kreitman tests to 715 alignments of gene orthologues identified eleven (1.5%) genes driven by positive selection. Three candidate genes were identified as potentially responsible for the observed niche segregation concerning nitrite concentration, habitat temperature and water conductivity. Additionally, signs of positive selection in the hydrogen sulfide detoxification pathway were detected, providing a new plausible hypothesis for the species’ ecological differentiation. Finally, a divergently selected, nuclear encoded mitochondrial ribosomal protein may contribute to reproductive isolation due to cytonuclear coevolution.
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DOI：
10.1093/bioinformatics/btq365
发表时间：
2010-09-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Balzer S;Malde K;Lanzén A;Sharma A;Jonassen I
通讯作者：
Jonassen I
影响因子：
2.9
作者：
Brito, Jose A.;Sousa, Filipa L.;Archer, Margarida
通讯作者：
Archer, Margarida
种群基因组学：果蝇果蝇中多态性和差异的全基因组分析。
影响因子：
9.8
作者：
Begun, David J.;Holloway, Alisha K.;Stevens, Kristian;Hillier, LaDeana W.;Poh, Yu-Ping;Hahn, Matthew W.;Nista, Phillip M.;Jones, Corbin D.;Kern, Andrew D.;Dewey, Colin N.;Pachter, Lior;Myers, Eugene;Langley, Charles H.
通讯作者：
Langley, Charles H.
影响因子：
3.3
作者：
Futschik, Andreas;Schloetterer, Christian
通讯作者：
Schloetterer, Christian
DOI：
10.1126/science.1191864
发表时间：
2010-10-01
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Arensburger P;Megy K;Waterhouse RM;Abrudan J;Amedeo P;Antelo B;Bartholomay L;Bidwell S;Caler E;Camara F;Campbell CL;Campbell KS;Casola C;Castro MT;Chandramouliswaran I;Chapman SB;Christley S;Costas J;Eisenstadt E;Feschotte C;Fraser-Liggett C;Guigo R;Haas B;Hammond M;Hansson BS;Hemingway J;Hill SR;Howarth C;Ignell R;Kennedy RC;Kodira CD;Lobo NF;Mao C;Mayhew G;Michel K;Mori A;Liu N;Naveira H;Nene V;Nguyen N;Pearson MD;Pritham EJ;Puiu D;Qi Y;Ranson H;Ribeiro JM;Roberston HM;Severson DW;Shumway M;Stanke M;Strausberg RL;Sun C;Sutton G;Tu ZJ;Tubio JM;Unger MF;Vanlandingham DL;Vilella AJ;White O;White JR;Wondji CS;Wortman J;Zdobnov EM;Birren B;Christensen BM;Collins FH;Cornel A;Dimopoulos G;Hannick LI;Higgs S;Lanzaro GC;Lawson D;Lee NH;Muskavitch MA;Raikhel AS;Atkinson PW
通讯作者：
Atkinson PW