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Data released on February 12, 2018

Transcriptome assemblies of three Bauhinia species.

Tang, W, M; Kwok, J, S; Bauhinia Genome community, ; Tsui, K, W (2018): Transcriptome assemblies of three Bauhinia species. GigaScience Database. http://dx.doi.org/10.5524/100345 RIS BibTeX Text

Bauhinia blakeana Dunn commonly known as the Hong Kong Orchid Tree, was adopted as the city flower of Hong Kong in 1965 and became the official emblem of the Hong Kong Special Administrative Region (HKSAR) in 1997. It was first discovered in the 1880s and is now planted all over the territory. It has long been suspected that Bauhinia blakeana is the sterile hybrid of two related species, B. purpurea and B. variegata, although limited genetic information of this plant has been available to confirm this. In this study utilizing crowdfunded data from the Bauhinia Genome project, unigenes of B. blakeana (94,755), B. purpurea (111,976) and B. variegata (81,757) were obtained after de novo transcriptome assembly of the three species’ leaves. We also pooled the reads of flowers and leaves from B. blakeana, resulting in 123,668 clusters. Data from mapping reads of the tested species to chloroplast sequences demonstrates that B. purpurea is the maternal parent. Differential expressed genes up-regulated in B. blakeana vs B. purpurea and B. variegata showed more specific bacterial and pathogen resistance, UV tolerance and drought avoidance. Using SNP parentage testing, a total of 79,302 SNPs were observed in 27 possible scenarios, in which 65,159 SNPs follow Mendelian law and yielded 82.17% in support of their parentage relationship. Raw data (see: GigaDB:100245) and RNA-extraction protocols (see: DOI:10.17504/protocols.io.gsnbwde) have already been published, and included here are the transcriptome assemblies, annotations and SNPs, along with other materials and results supporting this research. For more information see Buahinia Project pages.

Contact Submitter

Additional information:

http://bauhiniagenome.hk/

https://osf.io/scnd6/

Accessions (data not in GigaDB):

BioProject: PRJEB21302

Keywords:

transcriptome assembly hong kong orchid bauhinia community science 

Transcriptomic

http://gigadb.org/images/data/cropped/100245.jpg

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
blakeana-flowerA180222Hong Kong orchidtree Bauhinia blakeana Description:RNA extracted from a flower collected ...
Project name:Bauhinia Genome Project
Geographic location (latitude and longitude):22.45...
...
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blakeanaA180222Hong Kong orchidtree Bauhinia blakeana Description:RNA extracted from a leaf collected fr...
Project name:Bauhinia Genome Project
Geographic location (latitude and longitude):22.45...
...
+
purpureaA3806 camel's foot treeBauhinia purpurea Description:RNA extracted from a leaf collected fr...
Project name:Bauhinia Genome Project
Geographic location (latitude and longitude):22.45...
...
+
variegataA167791mountain ebony Bauhinia variegata Description:RNA extracted from a leaf collected fr...
Project name:Bauhinia Genome Project
Geographic location (latitude and longitude):22.45...
...
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Displaying 1-4 of 4 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 
transcriptome sequenceFASTA131.54 MB2018-02-12
annotationgtf9.83 MB2018-02-12
transcriptome sequenceFASTA125.47 MB2018-02-12
annotationgtf9.82 MB2018-02-12
ReadmeTEXT3.3 KB2018-02-12
transcriptome sequenceFASTA67.9 MB2018-02-12
Sequence variantsVCF177.99 MB2018-02-12
Sequence variantsVCF185.29 MB2018-02-12
transcriptome sequenceFASTA83.6 MB2018-02-12
annotationgtf7.02 MB2018-02-12
Displaying 1-10 of 10 File(s).

History:

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