Journal ArticleDOI
Tracing the genetic footprints of vertebrate landing in non-teleost ray-finned fishes.
X. J. Bi,Kun Wang,Liandong Yang,Hailin Pan,Haifeng Jiang,Qiwei Wei,Miaoquan Fang,Hao Yu,Chenglong Zhu,Yiran Cai,Yuming He,Xiaoni Gan,H.R. Zeng,Daqi Yu,Y. H. Zhu,Y. H. Zhu,Huifeng Jiang,Qiang Qiu,Huanming Yang,Yong Zhang,Wen Wang,Wen Wang,Wen Wang,Min Zhu,Min Zhu,Shunping He,Guojie Zhang +26 more
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TLDR
In this paper, the authors present genome sequences of the bichir, paddlefish, bowfin, and alligator gar, covering all major early divergent lineages of ray-finned fishes.About:
This article is published in Cell.The article was published on 2021-03-04. It has received 60 citations till now. The article focuses on the topics: Bichir & Vertebrate.read more
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African lungfish genome sheds light on the vertebrate water-to-land transition.
Kun Wang,Jun Wang,Chenglong Zhu,Liandong Yang,Yandong Ren,Yandong Ren,Jue Ruan,Guangyi Fan,Jiang Hu,Wenjie Xu,X. J. Bi,Y. H. Zhu,Yue Song,Huatao Chen,Tiantian Ma,Ruoping Zhao,Haifeng Jiang,Bin Zhang,Chenguang Feng,Yuan Yuan,Xiaoni Gan,Yongxin Li,H.R. Zeng,Qun Liu,Yaolei Zhang,Feng Shao,Shijie Hao,He Zhang,Xun Xu,Xin Liu,De-Peng Wang,Min Zhu,Guojie Zhang,Wenming Zhao,Qiang Qiu,Shunping He,Wen Wang,Wen Wang +37 more
TL;DR: In this paper, the authors reported a 40-Gb chromosome-level assembly of the African lungfish (Protopterus annectens) genome, which is the largest genome assembly ever reported and has a contig and chromosome N50 of 1.60 mb and 2.81 Gb, respectively.
Rethinking fish biology and biotechnologies in the challenge era for burgeoning genome resources and strengthening food security
Jian-Fang Gui,Li Zhou,Xi-Yin Li +2 more
TL;DR: In this article, the authors present a blueprint for genetic improvement and new breed creation for aquaculture species and analyze the potential of these new breeding strategies for improving aquaulture seed industry and strengthening food security.
Journal ArticleDOI
Rethinking fish biology and biotechnologies in the challenge era for burgeoning genome resources and strengthening food security
TL;DR: In this article , the authors present a blueprint for genetic improvement and new breed creation for aquaculture species and analyze the potential of these new breeding strategies for improving aquaulture seed industry and strengthening food security.
Journal ArticleDOI
The bowfin genome illuminates the developmental evolution of ray-finned fishes.
Andrew W. Thompson,M. Brent Hawkins,Elise Parey,Dustin J. Wcisel,Tatsuya Ota,Kazuhiko Kawasaki,Emily Funk,Emily Funk,Mauricio Losilla,Olivia E Fitch,Qiaowei Pan,Romain Feron,Romain Feron,Alexandra Louis,Jérôme Montfort,Marine Milhes,Brett Racicot,Kevin L. Childs,Quenton C. Fontenot,Allyse M. Ferrara,Solomon R. David,Amy R. McCune,Alex Dornburg,Jeffrey A. Yoder,Yann Guiguen,Hugues Roest Crollius,Camille Berthelot,Matthew P. Harris,Matthew P. Harris,Ingo Braasch +29 more
TL;DR: In this article, a chromosome-level genome assembly for the bowfin (Amia calva) is presented, which enables gene-order analyses, settling long-debated neopterygian phylogenetic relationships.
Journal ArticleDOI
Teleost swim bladder, an ancient air-filled organ that elicits mucosal immune responses
Yongyao Yu,Zhenyu Huang,Weiguang Kong,Fen Dong,Xiaoting Zhang,Xue Zhai,Gao-Feng Cheng,Meng-Ting Zhan,Jia Cao,Li-Guo Ding,Guang-Kun Han,Fumio Takizawa,Yang Ding,J. Oriol Sunyer,Zhen Xu +14 more
TL;DR: In this article , the authors demonstrate that secretory IgT (sIgT) is the key SB immunoglobulin (Ig) responding to the viral challenge, and the only Ig involved in viral neutralization in that organ.
References
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Analysis of relative gene expression data using real-time quantitative pcr and the 2(-delta delta c(t)) method
TL;DR: The 2-Delta Delta C(T) method as mentioned in this paper was proposed to analyze the relative changes in gene expression from real-time quantitative PCR experiments, and it has been shown to be useful in the analysis of realtime, quantitative PCR data.
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Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
Cole Trapnell,Cole Trapnell,Brian A. Williams,Geo Pertea,Ali Mortazavi,Gordon Kwan,Marijke J. van Baren,Steven L. Salzberg,Barbara J. Wold,Lior Pachter +9 more
TL;DR: The results suggest that Cufflinks can illuminate the substantial regulatory flexibility and complexity in even this well-studied model of muscle development and that it can improve transcriptome-based genome annotation.
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TopHat: discovering splice junctions with RNA-Seq
TL;DR: The TopHat pipeline is much faster than previous systems, mapping nearly 2.2 million reads per CPU hour, which is sufficient to process an entire RNA-Seq experiment in less than a day on a standard desktop computer.
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