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Data released on May 23, 2017

Supporting data for "The draft genome of blunt snout bream (Megalobrama amblycephala) reveals the development of intermuscular bone and adaptation to herbivorous diet"

Cai, H; Chen, B; Chen, C; Chen, J; Chen, J; Ebersberger, I; Gao, Z; Gu, Y; Jian, J; Jiang, X; Li, J; Liu, H; Liu, H; Luo, W; Min, J; Xu, M; Zhang, X; Bai, M; Lai, R; Wei, J; Yi, S; Cao, X; Wang, H; Zhou, X; Zhao, Y; Wei, K; Yang, R; Liu, B; Zhao, S; Fang, X; Schartl, M; Qian, X; Wang, W (2017): Supporting data for "The draft genome of blunt snout bream (Megalobrama amblycephala) reveals the development of intermuscular bone and adaptation to herbivorous diet" GigaScience Database. http://dx.doi.org/10.5524/100305 RIS BibTeX Text

The blunt snout bream, Megalobrama amblycephala, is an economically important cyprinid fish species. As a herbivore, it can be grown by eco-friendly and resource-conserving aquaculture. However, the large number of intermuscular bones in the trunk musculature is a less desirable feature for fish meat processing and consumption.
As a first towards optimizing this aquatic livestock, we present a 1.116-Gb draft genome of M. amblycephala, with 779.54 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 improvement of M. amblycephala livestock, the draft genome sequence offers new insights into the development of intermuscular bone and herbivorous adaptation.

Contact Submitter

Related manuscripts:

doi:10.1093/gigascience/gix039

Accessions (data included in GigaDB):

BioProject: PRJNA343584

Keywords:

Megalobrama amblycephala whole genome herbivorous diet intermuscular bone transcriptome gut microflora 

Genomic, Imaging, Transcriptomic

http://gigadb.org/images/data/cropped/100305.jpg

Funding:

  • Funding body - Chinese Ministry of Agriculture
  • Award ID - CARS-46-05
  • Comment - The Modern Agriculture Industry Technology System Construction Projects of China
  • Awardee - Wang Weimin
  • Funding body - Wuhan Government
  • Award ID - 2015030809020365
  • Comment - International Scientific and Technology Cooperation Program of Wuhan City
  • Awardee - Wang Weimin
  • Funding body - Chinese Ministry of Education
  • Award ID - 2662015PY019
  • Comment - Fundamental Research Funds for the Central Universities
  • Awardee - Wang Weimin

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
adult (female) double haploid75352blunt snout breamWuchang breamMegalobrama amblycephala Description:DNA extracted from blood of an adult f...
Geographic location (latitude and longitude):30.48...
Geographic location (country and/or sea,region):Ch...
...
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domestic adult (DBSB)75352blunt snout breamWuchang breamMegalobrama amblycephala Description:Microbial DNA extracted from domestic ...
Geographic location (latitude and longitude):30.48...
Geographic location (country and/or sea,region):Ch...
...
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F0 adult75352blunt snout breamWuchang breamMegalobrama amblycephala Description:DNA extracted from F0 adult for RAD se...
Geographic location (latitude and longitude):30.24...
Geographic location (country and/or sea,region):Ch...
...
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F1 one year old75352blunt snout breamWuchang breamMegalobrama amblycephala Description:DNA extracted from F1, one year old, f...
Geographic location (latitude and longitude):30.24...
Geographic location (country and/or sea,region):Ch...
...
+
juvenile (LBSB)75352blunt snout breamWuchang breamMegalobrama amblycephala Description:Microbial DNA extracted from the juven...
Geographic location (latitude and longitude):30.48...
Geographic location (country and/or sea,region):Ch...
...
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Larvae 15 dpf 75352blunt snout breamWuchang breamMegalobrama amblycephala Description:Larvae Fish For photographs, 15 days p...
Geographic location (latitude and longitude):30.48...
Geographic location (country and/or sea,region):Ch...
...
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Larvae 28 dpf 75352blunt snout breamWuchang breamMegalobrama amblycephala Description:Larvae Fish For photographs, 28 days p...
Geographic location (latitude and longitude):30.48...
Geographic location (country and/or sea,region):Ch...
...
+
Larvae 40 dpf 75352blunt snout breamWuchang breamMegalobrama amblycephala Description:Larvae Fish For photographs, 40 days p...
Geographic location (latitude and longitude):30.48...
Geographic location (country and/or sea,region):Ch...
...
+
stage1 RNA specimen (2 dpf)75352blunt snout breamWuchang breamMegalobrama amblycephala Description:RNA extracted from Stage 1, whole larv...
Geographic location (latitude and longitude):30.48...
Geographic location (country and/or sea,region):Ch...
...
+
stage1 RNA specimen (4 dpf)75352blunt snout breamWuchang breamMegalobrama amblycephala Description:RNA extracted from Stage 1, whole larv...
Geographic location (latitude and longitude):30.48...
Geographic location (country and/or sea,region):Ch...
...
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Displaying 1-10 of 24 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
Transcriptome sequenceFASTQ2.49 GB2017-06-16
Transcriptome sequenceFASTQ2.51 GB2017-06-16
Transcriptome sequenceFASTQ2.37 GB2017-06-16
Transcriptome sequenceFASTQ2.38 GB2017-06-16
Transcriptome sequenceFASTQ4.39 GB2017-06-16
Transcriptome sequenceFASTQ4.41 GB2017-06-16
Transcriptome sequenceFASTQ2.67 GB2017-06-16
Transcriptome sequenceFASTQ2.68 GB2017-06-16
Transcriptome sequenceFASTQ2.16 GB2017-06-16
Transcriptome sequenceFASTQ2.18 GB2017-06-16
Displaying 1-10 of 59 File(s).

History:

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