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Data released on April 14, 2018

The Monopterus genome

Zhao, X; Luo, M; Li, Z; Zhong, P; Cheng, Y; Lai, F; Wang, X; Min, J; Bai, M; Yang, Y; Cheng, H; Zhou, R (2018): The Monopterus genome GigaScience Database. http://dx.doi.org/10.5524/100435 RIS BibTeX Text

The teleost fish Monopterus albus is emerging as a new model for biological studies due to its natural sex transition and small genome, in addition to its enormous economic and potential medical value. However, no genomic information for the Monopterus is currently available.
Here, we sequenced and de novo assembled whole genome of the Monopterus, and report the de novo chromosome assembly by FISH walking assisted by conserved synteny (Cafs). Using Cafs, 328 scaffolds were assembled into 12 chromosomes, which cover genomic sequences of 555 Mb, accounting for 81.3% of the sequences assembled in scaffolds (~689 Mb). A total of 18,660 genes were mapped on the chromosomes and show a non-random distribution along chromosomes.
We report the first reference genome of the Monopterus and provided an efficient Cafs strategy for a de novo chromosome-level assembly of the Monopterus genome which provides a valuable resource, not only for further studies in genetics, evolution and development, particularly sex determination, but also for breed improvement of the species.

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Accessions (data included in GigaDB):

BioProject: PRJNA183073
GenBank: AONE00000000
GEO: GSM1067609
GEO: GSM1067610
GEO: GSM1067611

Keywords:

whole-genome sequencing genome assembly chromosomes fish 

Genomic

http://gigadb.org/images/data/cropped/100435.jpg

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
GSM106760943700rice-field eelswamp eelMonopterus albus Description :Total RNA extracted from ovary of ad...
Alternative names:BGI_SWEELB, Swamp Eel, Rice Fiel...
Sex:female
...
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GSM106761043700rice-field eelswamp eelMonopterus albus Description :Total RNA extracted from ovotestis of...
Alternative names:BGI_SWEELB, Swamp Eel, Rice Fiel...
Sex:intersex
...
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GSM106761143700rice-field eelswamp eelMonopterus albus Description :Total RNA extracted from testis of ad...
Alternative names:BGI_SWEELB, Swamp Eel, Rice Fiel...
Sex:male
...
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SAMN0188903143700rice-field eelswamp eelMonopterus albus Description :DNA extracted from muscle of adult ma...
Alternative names:BGI_SWEELA, Swamp Eel, Rice Fiel...
Sex:male
...
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SAMN0188903243700rice-field eelswamp eelMonopterus albus Description :DNA extracted from muscle of adult ma...
Alternative names:BGI_SWEELB, Swamp Eel, Rice Fiel...
Sex:male
...
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Displaying 1-5 of 5 Sample(s).

Files: (FTP site) Table Settings

Columns:

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

File NameSample IDData TypeFile FormatSizeRelease Date 
annotationGFF160.94 MB2018-04-01
annotationGFF22.16 MB2018-04-01
annotationGFF17.17 MB2018-04-01
annotationGFF43.8 MB2018-04-01
annotationGFF15.4 MB2018-04-01
BAC ends sequenceFASTA1.8 MB2018-04-01
Coding SequenceFASTA40.56 MB2018-04-01
DirectoryUNKNOWN-0 KB2018-04-01
file_typeFASTA659.14 MB2018-04-01
otherTEXT0.78 KB2018-04-01
Displaying 1-10 of 16 File(s).

History:

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