The draft genome of blunt snout bream (Megalobrama amblycephala) reveals the development of intermuscular bone and adaptation to herbivorous diet.
Han Liu,Chunhai Chen,Zexia Gao,Jiumeng Min,Yongming Gu,Jianbo Jian,Xiewu Jiang,Huimin Cai,Ingo Ebersberger,Meng Xu,Xinhui Zhang,Jianwei Chen,Wei Luo,Boxiang Chen,Jun-Hui Chen,Hong Liu,Jiang Li,Ruifang Lai,Mingzhou Bai,Jin Wei,Shaokui Yi,Huan-Ling Wang,Xiaojuan Cao,Xiaoyun Zhou,Yu-Hua Zhao,Kai-Jian Wei,Ruibin Yang,Bingnan Liu,Shancen Zhao,Xiaodong Fang,Manfred Schartl,Manfred Schartl,Xueqiao Qian,Weimin Wang +33 more
Reads0
Chats0
TLDR
It is shown that intermuscular bone is formed in the more basal teleosts by intramembranous ossification and may be involved in muscle contractibility and coordinating cellular events in M. amblycephala.Abstract:
The blunt snout bream Megalobrama amblycephala is the economically most important cyprinid fish species As an herbivore, it can be grown by eco-friendly and resource-conserving aquaculture However, the large number of intermuscular bones in the trunk musculature is adverse to fish meat processing and consumption As a first towards optimizing this aquatic livestock, we present a 1116-Gb draft genome of M amblycephala, with 77954 Mb anchored on 24 linkage groups Integrating spatiotemporal transcriptome analyses, we show that intermuscular bone is formed in the more basal teleosts by intramembranous ossification and may be involved in muscle contractibility and coordinating cellular events Comparative analysis revealed that olfactory receptor genes, especially of the beta type, underwent an extensive expansion in herbivorous cyprinids, whereas the gene for the umami receptor T1R1 was specifically lost in M amblycephala The composition of gut microflora, which contributes to the herbivorous adaptation of M amblycephala, was found to be similar to that of other herbivores As a valuable resource for the improvement of M amblycephala livestock, the draft genome sequence offers new insights into the development of intermuscular bone and herbivorous adaptationread more
Citations
More filters
Journal ArticleDOI
Research advances in the genomics and applications for molecular breeding of aquaculture animals
Xinxin You,Xinxin Shan,Qiong Shi +2 more
TL;DR: This review assesses the availability of complete genomes of aquaculture animals and then briefly discusses the sequencing technologies and SNP array for SNPs genotyping, and summarizes the current status of genetic linkage map construction, QTL mapping, GWAS, and GS in aquatic animals.
Journal ArticleDOI
The genome of the arapaima (Arapaima gigas) provides insights into gigantism, fast growth and chromosomal sex determination system.
Kang Du,Kang Du,Sven Wuertz,Mateus Contar Adolfi,Susanne Kneitz,Matthias Stöck,Marcos De Oliveira,Marcos De Oliveira,Rafael Henrique Nóbrega,Jenny Ormanns,Werner Kloas,Romain Feron,Christophe Klopp,Hugues Parrinello,Laurent Journot,Shunping He,John H. Postlethwait,Axel Meyer,Yann Guiguen,Manfred Schartl,Manfred Schartl +20 more
TL;DR: W Whole transcriptome sequencing showed that the product of the gland-like secretory organ on the head surface of males and females may not only provide nutritional fluid for sex-unbiased parental care, but that the organ itself has a more specific function in males, which engage more in parental care.
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
Whole-genome sequencing of leopard coral grouper ( Plectropomus leopardus) and exploration of regulation mechanism of skin color and adaptive evolution.
TL;DR: This high-quality genome of the leopard coral grouper is the first genomic resource for Plectropomus and should provide a pivotal genetic foundation for further research.
References
More filters
Journal ArticleDOI
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Stephen F. Altschul,Thomas L. Madden,Alejandro A. Schäffer,Jinghui Zhang,Zheng Zhang,Webb Miller,David J. Lipman +6 more
TL;DR: A new criterion for triggering the extension of word hits, combined with a new heuristic for generating gapped alignments, yields a gapped BLAST program that runs at approximately three times the speed of the original.
Journal ArticleDOI
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li,Richard Durbin +1 more
TL;DR: Burrows-Wheeler Alignment tool (BWA) is implemented, a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps.
Journal ArticleDOI
Fast gapped-read alignment with Bowtie 2
TL;DR: Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.
Journal ArticleDOI
MUSCLE: multiple sequence alignment with high accuracy and high throughput
TL;DR: MUSCLE is a new computer program for creating multiple alignments of protein sequences that includes fast distance estimation using kmer counting, progressive alignment using a new profile function the authors call the log-expectation score, and refinement using tree-dependent restricted partitioning.
Journal ArticleDOI
Gene Ontology: tool for the unification of biology
M Ashburner,Catherine A. Ball,Judith A. Blake,David Botstein,Heather Butler,J. M. Cherry,Allan Peter Davis,Kara Dolinski,Selina S. Dwight,J.T. Eppig,Midori A. Harris,David P. Hill,Laurie Issel-Tarver,Andrew Kasarskis,Suzanna E. Lewis,John C. Matese,Joel E. Richardson,M. Ringwald,Gerald M. Rubin,Gavin Sherlock +19 more
TL;DR: The goal of the Gene Ontology Consortium is to produce a dynamic, controlled vocabulary that can be applied to all eukaryotes even as knowledge of gene and protein roles in cells is accumulating and changing.