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Data released on November 02, 2017

Supporting data for "Genome sequence of the small brown planthopper Laodelphax striatellus"

Zhu, J; Jiang, F; Wang, X; Yang, P; Bao, Y; Zhao, W; Wang, W; Lu, H; Wang, Q; Cui, N; Li, J; Chen, X; Luo, L; Yu, J; Kang, L; Cui, F (2017): Supporting data for "Genome sequence of the small brown planthopper Laodelphax striatellus" GigaScience Database. http://dx.doi.org/10.5524/100361 RIS BibTeX Text

Laodelphax striatellus Fallén (Hemiptera: Delphacidae) is one of the most destructive rice pests. L. striatellus is different from another two genome-released rice planthoppers, Sogatella furcifera and Nilaparvata lugens, in many biological characteristics, such as host range, dispersal capacity, and vectoring plant viruses. Deciphering the genome of L. striatellus will help understand the genetic basis of the biological differences among the three rice planthoppers.
193 Gb Illumina data and 32.4 Gb Pacbio data were generated and used to assemble a high quality L. striatellus genome sequence, which is 541 Mb in length and has a contig N50 of 118 Kb and a scaffold N50 of 1.08 Mb. Annotated repetitive elements account for 25.7% of the genome. 17736 protein-coding genes were annotated, capturing 97.6% and 98% of BUSCO eukaryote and arthropoda genes, respectively. Compared to N. lugens and S. furcifera, L. striatellus has the smallest genome and the least gene number. Gene family expansion and transcriptomic analyses provided hints to the genomic basis of the differences in important traits such as host range, migratory habit and plant virus transmission between L. striatellus and the other two planthoppers.
We reported a high quality genome assembly of L. striatellus, which is an important genomic resource not only for the study of the biology of L. striatellus and its interactions with plant hosts and plant viruses, but also for the comparisons to other planthoppers.

Contact Submitter

Related manuscripts:

doi:doi.org/10.1093/gigascience/gix1

Accessions (data included in GigaDB):

BioProject: PRJNA393384
BioProject: PRJNA398597

Keywords:

comparative genomics insects genome sequencing annotation virus transmission 

Genomic, Transcriptomic

http://gigadb.org/images/data/cropped/100361.jpg

Funding:

  • Funding body - Chinese Academy of Sciences
  • Award ID - XDB11040200
  • Comment - Strategic Priority Research Program
  • Awardee - F Cui
  • Funding body - Ministry of Science and Technology of the People's Republic of China
  • Award ID - 2014CB13840402
  • Comment - Major State Basic Research Development Program of China (973 Program)
  • Awardee - F Cui
  • Funding body - National Natural Science Foundation of China
  • Award ID - 31371934
  • Awardee - Y Bao

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Adult195883small brown planthopperLaodelphax striatella Description:RNA extracted from adults of Laodelpha...
Analyte type:RNA
Sample source:Institute of Zoology, Chinese Academ...
...
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Brain195883small brown planthopperLaodelphax striatella Description:RNA extracted from brains of Laodelpha...
Analyte type:RNA
Sample source:Institute of Zoology, Chinese Academ...
...
+
Day7BPH108931 brown planthopperNilaparvata lugens Description:RNA extracted from Nilaparvata lugens ...
Analyte type:RNA
Sample source:Huajiachi
...
+
Egg195883small brown planthopperLaodelphax striatella Description:RNA extracted from eggs of Laodelphax ...
Analyte type:RNA
Sample source:Institute of Zoology, Chinese Academ...
...
+
Fat body195883small brown planthopperLaodelphax striatella Description:RNA extracted from fat bodies of Laode...
Analyte type:RNA
Sample source:Institute of Zoology, Chinese Academ...
...
+
Gonad195883small brown planthopperLaodelphax striatella Description:RNA extracted from gonads of Laodelpha...
Analyte type:RNA
Sample source:Institute of Zoology, Chinese Academ...
...
+
Larva195883small brown planthopperLaodelphax striatella Description:RNA extracted from larvae of Laodelpha...
Analyte type:RNA
Sample source:Institute of Zoology, Chinese Academ...
...
+
NaiveBPH108931 brown planthopperNilaparvata lugens Description:RNA extracted from RRSV-naive Nilaparv...
Analyte type:RNA
Sample source:Huajiachi
...
+
SBPH195883small brown planthopperLaodelphax striatella Description:Inbred laboratory strain of Laodelphax...
Analyte type:DNA
Sample source:Institute of Zoology, Chinese Academ...
...
+
Tentacle195883small brown planthopperLaodelphax striatella Description:RNA extracted from tentacles of Laodel...
Analyte type:RNA
Sample source:Institute of Zoology, Chinese Academ...
...
+
Displaying 1-10 of 10 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 
Phylogenetic treeUNKNOWN0.95 KB2017-10-16
ReadmeTEXT3.87 KB2017-10-16
AlignmentsUNKNOWN694.02 KB2017-10-16
SNPsVCF250.83 MB2017-10-16
annotationUNKNOWN665.79 KB2017-10-16
Displaying 21-25 of 25 File(s).

History:

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