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Rapid evolutionary divergence of Gossypium barbadense and G. hirsutum mitochondrial genomes

文献类型： 外文期刊

作者： Tang, Mingyong 1 ; Chen, Zhiwen 1 ; Grover, Corrinne E. 2 ; Wang, Yumei 3 ; Li, Shuangshuang 1 ; Liu, Guozheng 1 ; Ma, 1 ;

作者机构： 1.China Agr Univ, Beijing Key Lab Crop Genet Improvement, Key Lab Crop Heterosis & Utilizat, Dept Plant Genet & Breeding,Minist Educ, Beijing 100193, Peoples R China

2.Iowa State Univ, Dept Ecol Evolut & Organismal Biol, Ames, IA 50011 USA

3.Hubei Acad Agr Sci, Inst Cash Crops, Wuhan 430064, Hubei, Peoples R China

4.Hebei Agr Univ, Coll Agron, Baoding 071001, Hebei, Peoples R China

关键词： Mitochondrial genome;Comparative genomics;DNA rearrangement;Duplicated copy;Sequence transfer

期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）

ISSN： 1471-2164

年卷期： 2015 年 16 卷

页码：

收录情况： SCI

摘要： Background: The mitochondrial genome from upland cotton, G. hirsutum, was previously sequenced. To elucidate the evolution of mitochondrial genomic diversity within a single genus, we sequenced the mitochondrial genome from Sea Island cotton (Gossypium barbadense L.). Methods: Mitochondrial DNA from week-old etiolated seedlings was extracted from isolated organelles using discontinuous sucrose density gradient method. Mitochondrial genome was sequenced with Solexa using paired-end, 90 bp read. The clean reads were assembled into contigs using ABySS and finished via additional fosmid and BAC sequencing. Finally, the genome was annotated and analyzed using different softwares. Results: The G. barbadense (Sea Island cotton) mitochondrial genome was fully sequenced (677,434-bp) and compared to the mitogenome of upland cotton. The G. barbadense mitochondrial DNA contains seven more genes than that of upland cotton, with a total of 40 protein coding genes (excluding possible pseudogenes), 6 rRNA genes, and 29 tRNA genes. Of these 75 genes, atp1, mttB, nad4, nad9, rrn5, rrn18, and trnD(GTC)-cp were each represented by two identical copies. A single 64 kb repeat was largely responsible for the 9 % difference in genome size between the two mtDNAs. Comparison of genome structures between the two mitochondrial genomes revealed 8 rearranged syntenic regions and several large repeats. The largest repeat was missing from the master chromosome in G. hirsutum. Both mitochondrial genomes contain a duplicated copy of rps3 (rps3-2) in conjunction with a duplication of repeated sequences. Phylogenetic and divergence considerations suggest that a 544-bp fragment of rps3 was transferred to the nuclear genome shortly after divergence of the A-and D-genome diploid cottons. Conclusion: These results highlight the insights to the evolution of structural variation between Sea Island and upland cotton mitochondrial genomes.

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[1]Entire nucleotide sequences of Gossypium raimondii and G.arboreum mitochondrial genomes revealed A-genome species as cytoplasmic donor of the allotetraploid species. Chen, Z.,Nie, H.,Li, P.,Wang, M.,Pei, H.,Zhao, Y.,Li, S.,Hua, J.,Grover, C. E.,Wendel, J. F.,Wang, Y.,Li, P..

[2]Rapid evolutionary divergence of diploid and allotetraploid Gossypium mitochondrial genomes. Chen, Zhiwen,Nie, Hushuai,Pei, Haili,Li, Shuangshuang,Hua, Jinping,Wang, Yumei,Zhang, Lida. 2017

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