Genome sequencing of herb Tulsi (Ocimum tenuiflorum) unravels key genes behind its strong medicinal properties

BMC Plant Biology
Atul K UpadhyayRamanathan Sowdhamini

Abstract

Krishna Tulsi, a member of Lamiaceae family, is a herb well known for its spiritual, religious and medicinal importance in India. The common name of this plant is 'Tulsi' (or 'Tulasi' or 'Thulasi') and is considered sacred by Hindus. We present the draft genome of Ocimum tenuiflurum L (subtype Krishna Tulsi) in this report. The paired-end and mate-pair sequence libraries were generated for the whole genome sequenced with the Illumina Hiseq 1000, resulting in an assembled genome of 374 Mb, with a genome coverage of 61 % (612 Mb estimated genome size). We have also studied transcriptomes (RNA-Seq) of two subtypes of O. tenuiflorum, Krishna and Rama Tulsi and report the relative expression of genes in both the varieties. The pathways leading to the production of medicinally-important specialized metabolites have been studied in detail, in relation to similar pathways in Arabidopsis thaliana and other plants. Expression levels of anthocyanin biosynthesis-related genes in leaf samples of Krishna Tulsi were observed to be relatively high, explaining the purple colouration of Krishna Tulsi leaves. The expression of six important genes identified from genome data were validated by performing q-RT-PCR in different tissues of five differ...Continue Reading

References

Apr 1, 1994·Trends in Biochemical Sciences·K PorallaG Sprenger
Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Jul 30, 1999·Nature Structural Biology·J L FerrerJ P Noel
Apr 5, 2002·Genome Research·W James Kent
Sep 4, 2003·Genome Research·Li LiDavid S Roos
Sep 13, 2003·BMC Bioinformatics·Roman L TatusovDarren A Natale
Dec 19, 2003·Nucleic Acids Research·Rolf ApweilerLai-Su L Yeh
Dec 19, 2003·Nucleic Acids Research·Ren ZhangChun-Ting Zhang
Feb 17, 2005·BMC Bioinformatics·Guy St C Slater, Ewan Birney
Jun 18, 2005·Bioinformatics·Alkes L PricePavel A Pevzner
Jun 28, 2005·Nucleic Acids Research·Mario Stanke, Burkhard Morgenstern
Sep 12, 2007·Bioinformatics·M A LarkinD G Higgins
Nov 21, 2007·Genome Research·Brandi L CantarelMark Yandell
Aug 14, 2008·Bioinformatics·Hui Jiang, Wing Hung Wong
Jun 10, 2009·Bioinformatics·Heng LiUNKNOWN 1000 Genome Project Data Processing Subgroup
Jan 11, 2011·Bioinformatics·Guillaume Marçais, Carl Kingsford
Apr 30, 2011·BMC Bioinformatics·Marcus LechnerSonja J Prohaska
Jul 28, 2011·International Journal of Cancer. Journal International Du Cancer·Prema S RaoU Subrahmanyeswara Rao
Nov 24, 2011·Nucleic Acids Research·David M GoodsteinDaniel S Rokhsar
Mar 6, 2012·Nature Methods·Ben Langmead, Steven L Salzberg
Oct 23, 2012·Methods in Enzymology·Elsa Góngora-CastilloC Robin Buell
Apr 20, 2013·Nucleic Acids Research·Jaina MistryMarco Punta
May 29, 2013·Genome Biology·Martin HuntThomas D Otto
Feb 1, 2011·Statistical Science : a Review Journal of the Institute of Mathematical Statistics·Julia SalzmanWing Hung Wong
Feb 14, 2014·TheScientificWorldJournal·Felix BastDevendra Meena
Feb 18, 2014·Bioinformatics·Yinlong XieJun Wang
Jul 13, 2014·BMC Genomics·Shubhra RastogiAjit Kumar Shasany
Oct 11, 2014·Nature Communications·Wenquan WangMing Peng

❮ Previous
Next ❯

Citations

Nov 16, 2017·Medicines·Hit Kishore Goswami, Hitendra Kumar Ram
Jul 16, 2019·Genome Biology and Evolution·Shu-Ye JiangSrinivasan Ramachandran
May 26, 2018·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Ramasamy YasodhaSuma Arun Dev
Jul 5, 2017·Proceedings of the National Academy of Sciences of the United States of America·Ancheng C HuangAnne Osbourn
Jan 30, 2019·Bioinformatics and Biology Insights·Atul Kumar Upadhyay, Ramanathan Sowdhamini
Dec 20, 2020·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Itay GondaNativ Dudai
Nov 6, 2020·Biomolecules·Juhyeon Son, Sang Yeol Lee
Apr 29, 2020·Current Opinion in Plant Biology·Benjamin R LichmanCarol Robin Buell
Jun 3, 2021·Cells·Deepu PanditaHosam O Elansary
Aug 10, 2021·Phytochemistry Reviews : Proceedings of the Phytochemical Society of Europe·Tanuja P GuravAshok P Giri
Dec 4, 2019·Journal of Proteome Research·Vikram SinghVikram Singh

❮ Previous
Next ❯

Datasets Mentioned

BETA
PRJNA251328

Methods Mentioned

BETA
RNA-seq
PCR

Software Mentioned

EXONERATE
FASTX
MAKER
house
HMMER3
PSI
REAPR ( SMALT )
CEGMA
: RNA - seq analyzer
trans

Related Concepts

Related Feeds

Cancer Genomics (Keystone)

Cancer genomics approaches employ high-throughput technologies to identify the complete catalog of somatic alterations that characterize the genome, transcriptome and epigenome of cohorts of tumor samples. Discover the latest research using such technologies in this feed.

Antifungals

An antifungal, also known as an antimycotic medication, is a pharmaceutical fungicide or fungistatic used to treat and prevent mycosis such as athlete's foot, ringworm, candidiasis, cryptococcal meningitis, and others. Discover the latest research on antifungals here.

Antifungals (ASM)

An antifungal, also known as an antimycotic medication, is a pharmaceutical fungicide or fungistatic used to treat and prevent mycosis such as athlete's foot, ringworm, candidiasis, cryptococcal meningitis, and others. Discover the latest research on antifungals here.

Cancer -Omics

A variety of different high-throughput technologies can be used to identify the complete catalog of changes that characterize the molecular profile of cohorts of tumor samples. Discover the latest insights gained from cancer 'omics' in this feed.

CZI Human Cell Atlas Seed Network

The aim of the Human Cell Atlas (HCA) is to build reference maps of all human cells in order to enhance our understanding of health and disease. The Seed Networks for the HCA project aims to bring together collaborators with different areas of expertise in order to facilitate the development of the HCA. Find the latest research from members of the HCA Seed Networks here.