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题名: Genome Sequence of the Freshwater Yangtze Finless Porpoise
作者: Yuan, Yuan1, 2; Zhang, Peijun3; Wang, Kun1, 2; Liu, Mingzhong3; Li, Jing1; Zheng, Jinsong4; Wang, Ding4; Xu, Wenjie1; Lin, Mingli3; Dong, Lijun3; Zhu, Chenglong1; Qiu, Qiang1, 2; Li, Songhai3
关键词: Yangtze finless porpoise ; endangered species ; genome ; genome assembly ; annotation ; genome evolution
刊名: GENES
发表日期: 2018-04-01
DOI: 10.3390/genes9040213
卷: 9, 期:4
收录类别: SCI
文章类型: Article
WOS标题词: Science & Technology ; Life Sciences & Biomedicine
类目[WOS]: Genetics & Heredity
研究领域[WOS]: Genetics & Heredity
英文摘要: The Yangtze finless porpoise (Neophocaena asiaeorientalis ssp. asiaeorientalis) is a subspecies of the narrow-ridged finless porpoise (N. asiaeorientalis). In total, 714.28 gigabases (Gb) of raw reads were generated by whole-genome sequencing of the Yangtze finless porpoise, using an Illumina HiSeq 2000 platform. After filtering the low-quality and duplicated reads, we assembled a draft genome of 2.22 Gb, with contig N50 and scaffold N50 values of 46.69 kilobases (kb) and 1.71 megabases (Mb), respectively. We identified 887.63 Mb of repetitive sequences and predicted 18,479 protein-coding genes in the assembled genome. The phylogenetic tree showed a relationship between the Yangtze finless porpoise and the Yangtze River dolphin, which diverged approximately 20.84 million years ago. In comparisons with the genomes of 10 other mammals, we detected 44 species-specific gene families, 164 expanded gene families, and 313 positively selected genes in the Yangtze finless porpoise genome. The assembled genome sequence and underlying sequence data are available at the National Center for Biotechnology Information under BioProject accession number PRJNA433603.
关键词[WOS]: SECONDARY AQUATIC ADAPTATION ; PHYLOGENETIC ANALYSIS ; ADAPTIVE EVOLUTION ; TOOL ; NEOPHOCAENA ; ALIGNMENTS ; EXTINCTION ; CETACEANS ; PROGRAM
语种: 英语
项目资助者: Talents Team Construction Fund of Northwestern Polytechnical University ; National Natural Science Foundation of China(41422604) ; Chinese Academy of Sciences(SIDSSE-BR-315 201201 ; Y410012)
WOS记录号: WOS:000435182200041
ISSN号: 2073-4425
Citation statistics:
内容类型: 期刊论文
URI标识: http://ir.ihb.ac.cn/handle/342005/50900
Appears in Collections:水生生物多样性与资源保护研究中心_期刊论文

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作者单位: 1.Northwestern Polytech Univ, Ctr Ecol & Environm Sci, Xian 710072, Shaanxi, Peoples R China
2.Northwestern Polytech Univ, Qingdao Res Inst, Qingdao 266200, Peoples R China
3.Chinese Acad Sci, Inst Deep Sea Sci & Engn, Marine Mammal & Marine Bioacoust Lab, Sanya 572000, Peoples R China
4.Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Hubei, Peoples R China
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