PXD006283

PXD006283 is an original dataset announced via ProteomeXchange.

Title	An Integrated OMICs Approach of Assembly and Annotation of Indian Sandalwood (Santalum album L.) plant genome provides insights into an array of genes involved in Santalol biosynthesis
Description	Indian sandalwood (Santalum album) is an economically important plant known for its aromatic wood. This highly valued plant has also been reported as an endangered species. Despite its economic value, the genome sequence of this plant is not yet available. In the current study,we report the draft genome sequence of sandalwood generated using Illumina HiSeq1000 sequencing platform. Genome annotation was carried out using InterProScan tool and Uniprot database,which was further facilitated using in-house RNA-Seq data. Further, we carried out in-depth proteome analysis of samples derived from four tissues viz., shoot meristem, leaf, stem and fruit using high-resolution tandem mass spectrometry. Proteogenomics analysis was performed to identify novel gene models, revise the predicted gene structures and provide experimental evidence for the predicted genes. Our analysis resulted in the identification of 72,325 peptides mapping to 10,076 genes predicted in the sandalwood genome thereby validating the expression of these gene models. Additionally, this study also provides evidence for 53 novel protein coding genes and revision of 121existing gene models.
HostingRepository	PRIDE
AnnounceDate	2019-05-29
AnnouncementXML	Submission_2019-05-29_06:35:44.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Keshava Prasad T. S.
SpeciesList	scientific name: Santalum album; NCBI TaxID: 35974;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion ETD

Revision	Datetime	Status	ChangeLog Entry
0	2017-04-10 05:41:31	ID requested
⏵ 1	2019-05-29 06:35:45	announced

Mahesh HB, Subba P, Advani J, Shirke MD, Loganathan RM, Chandana SL, Shilpa S, Chatterjee O, Pinto SM, Prasad TSK, Gowda M, ) Genome. Plant Physiol, 176(4):2772-2788(2018) [pubmed]

curator keyword: Biological

submitter keyword: Santalum album

T. S. Keshava Prasad
contact affiliation	Institute of Bioinformatics, Discoverer-7th Floor, Unit-1, International Technology Park, Whitefield, Bangalore - 560066, India
contact email	keshav@ibioinformatics.org
lab head
Keshava Prasad T. S.
contact affiliation	Institute of Bioinformatics, Bangalore, Karnataka, India.
contact email	keshav@ibioinformatics.org
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2019/05/PXD006283

PRIDE project URI

• PRIDE
  1. PXD006283
     1. Label: PRIDE project
     2. Name: An Integrated OMICs Approach of Assembly and Annotation of Indian Sandalwood (Santalum album L.) plant genome provides insights into an array of genes involved in Santalol biosynthesis