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Data released on May 30, 2018

Supporting data for "Improved de novo genome assembly and analysis of the Chinese cucurbit Siraitia grosvenorii, also known as monk fruit or luo-han-guo"

Xia, M; Han, X; He, H; Yu, R; Zhen, G; Jia, X; Cheng, B; Deng, X, W (2018): Supporting data for "Improved de novo genome assembly and analysis of the Chinese cucurbit Siraitia grosvenorii, also known as monk fruit or luo-han-guo" GigaScience Database. http://dx.doi.org/10.5524/100452 RIS BibTeX Text

Luo-han-guo (Siraitia grosvenorii), also called monk fruit, is a member of the Cucurbitaceae family. Currently, monk fruit has become important for research because of the pharmacological and economic potential of its non-caloric, extremely sweet components (mogrosides). It is also commonly used in traditional Chinese medicine for the treatment of lung congestion, sore throat and constipation. Recently, a single reference genome became available for monk fruit, assembled from 36.9 x genome coverage reads via Illumina sequencing platforms. This genome assembly has a relatively short (34.2 Kb) contig N50 length and lacks integrated annotations. These drawbacks make it difficult to use as a reference in assembling transcriptomes and discovering novel functional genes.
Here, we offer a new high-quality draft of the S. grosvenorii genome assembled using 31 Gb (~ 73.8 x) long single molecule real time sequencing (SMRT) reads and polished with ~ 50 Gb Illumina paired-end reads. The final genome assembly is approximately 469.5 Mb, with a contig N50 length of 432,384 bp, representing a 12.6-fold improvement. We further annotated 237.3 Mb of repetitive sequence and 30,565 consensus protein coding genes with combined evidence. Phylogenetic analysis showed that S. grosvenorii The availability of this new monk fruit genome assembly, as well as the annotations, will facilitate the discovery of new functional genes and the genetic improvement of monk fruit.

Contact Submitter

Additional information:

https://github.com/TransDecoder/TransDecoder

Accessions (data included in GigaDB):

BioProject: PRJEB23465
BioProject: PRJEB23466
BioProject: PRJEB25737

Keywords:

siraitia grosvenorii monk fruit ortholog analysis rnaseq mogrosides biosynthesis 

Genomic

http://gigadb.org/images/data/cropped/100452.png

Funding:

  • Funding body - National Key Technology R&D Program of China
  • Location - China
  • Award ID - 2017YFA0503800
  • Awardee - X W Deng

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
F1.rep1190515luo han guo Siraitia grosvenorii Description:RNA isolated from fruit (3 DAA) of mon...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
F1.rep2190515luo han guo Siraitia grosvenorii Description:RNA isolated from fruit (3 DAA) of mon...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
F2.rep1190515luo han guo Siraitia grosvenorii Description:RNA isolated from fruit (20 DAA) of mo...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
F2.rep2190515luo han guo Siraitia grosvenorii Description:RNA isolated from fruit (20 DAA) of mo...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
FL.rep1190515luo han guo Siraitia grosvenorii Description:RNA isolated from leaf of female monk ...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
FL.rep2190515luo han guo Siraitia grosvenorii Description:RNA isolated from leaf of female monk ...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
FL.rep3190515luo han guo Siraitia grosvenorii Description:RNA isolated from leaf of female monk ...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
L.rep1190515luo han guo Siraitia grosvenorii Description:RNA isolated from leaf of monk friut ...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
L.rep2190515luo han guo Siraitia grosvenorii Description:RNA isolated from leaf of monk friut ...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
ML.rep1190515luo han guo Siraitia grosvenorii Description:RNA isolated from leaf of male monk fr...
Infra specific rank:variety
Common name:monk fruit; luo han guo
...
+
Displaying 1-10 of 17 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 
Phylogenetic treeUNKNOWN0.41 KB2018-05-25
scriptUNKNOWN0.53 KB2018-05-25
annotationTEXT0.82 KB2018-05-25
ReadmeTEXT3.19 KB2018-05-25
AlignmentsTSV103.92 KB2018-05-25
Expression dataUNKNOWN1.28 MB2018-05-25
AlignmentsFASTA2.57 MB2018-05-25
Coding SequenceTEXT3.46 MB2018-05-25
protein sequenceFASTA14.92 MB2018-05-25
Coding SequenceFASTA36.22 MB2018-05-25
Displaying 1-10 of 15 File(s).

History:

+

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