Unravelling the genome of Holy basil: an “incomparable” “elixir of life” of traditional Indian medicine
Identifieur interne : 000382 ( Main/Exploration ); précédent : 000381; suivant : 000383Unravelling the genome of Holy basil: an “incomparable” “elixir of life” of traditional Indian medicine
Auteurs : Shubhra Rastogi ; Alok Kalra ; Vikrant Gupta ; Feroz Khan ; Raj Kishori Lal ; Anil Kumar Tripathi ; Sriram Parameswaran ; Chellappa Gopalakrishnan ; Gopalakrishna Ramaswamy ; Ajit Kumar ShasanySource :
- BMC Genomics [ 1471-2164 ] ; 2015.
Abstract
The saturated draft assembly of the genome was about 386 Mb, along with the plastid genome of 142,245 bp, turning out to be the smallest in Lamiaceae. In addition to SSR markers, 136 proteins were identified as homologous to five important plant genomes. Pathway analysis indicated an abundance of phenylpropanoids in
The genome sequence and annotation of
The online version of this article (doi:10.1186/s12864-015-1640-z) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12864-015-1640-z
PubMed: 26017011
PubMed Central: 4445982
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Unravelling the genome of Holy basil: an “incomparable” “elixir of life” of traditional Indian medicine</title><author><name sortKey="Rastogi, Shubhra" sort="Rastogi, Shubhra" uniqKey="Rastogi S" first="Shubhra" last="Rastogi">Shubhra Rastogi</name><affiliation><nlm:aff id="Aff1">Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Kalra, Alok" sort="Kalra, Alok" uniqKey="Kalra A" first="Alok" last="Kalra">Alok Kalra</name><affiliation><nlm:aff id="Aff2">Microbial Technology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 Uttar Pradesh India</nlm:aff><wicri:noCountry code="subfield">226015 Uttar Pradesh India</wicri:noCountry></affiliation></author><author><name sortKey="Gupta, Vikrant" sort="Gupta, Vikrant" uniqKey="Gupta V" first="Vikrant" last="Gupta">Vikrant Gupta</name><affiliation><nlm:aff id="Aff1">Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Khan, Feroz" sort="Khan, Feroz" uniqKey="Khan F" first="Feroz" last="Khan">Feroz Khan</name><affiliation><nlm:aff id="Aff3">Metabolic and Structural Biology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Lal, Raj Kishori" sort="Lal, Raj Kishori" uniqKey="Lal R" first="Raj Kishori" last="Lal">Raj Kishori Lal</name><affiliation><nlm:aff id="Aff4">Genetics and Plant Breeding Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Tripathi, Anil Kumar" sort="Tripathi, Anil Kumar" uniqKey="Tripathi A" first="Anil Kumar" last="Tripathi">Anil Kumar Tripathi</name><affiliation><nlm:aff id="Aff1">Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Parameswaran, Sriram" sort="Parameswaran, Sriram" uniqKey="Parameswaran S" first="Sriram" last="Parameswaran">Sriram Parameswaran</name><affiliation><nlm:aff id="Aff5">Research and Development Unit, Genotypic Technology Private Limited, Bangalore, Karnataka 560094 India</nlm:aff><wicri:noCountry code="subfield">Karnataka 560094 India</wicri:noCountry></affiliation></author><author><name sortKey="Gopalakrishnan, Chellappa" sort="Gopalakrishnan, Chellappa" uniqKey="Gopalakrishnan C" first="Chellappa" last="Gopalakrishnan">Chellappa Gopalakrishnan</name><affiliation><nlm:aff id="Aff5">Research and Development Unit, Genotypic Technology Private Limited, Bangalore, Karnataka 560094 India</nlm:aff><wicri:noCountry code="subfield">Karnataka 560094 India</wicri:noCountry></affiliation></author><author><name sortKey="Ramaswamy, Gopalakrishna" sort="Ramaswamy, Gopalakrishna" uniqKey="Ramaswamy G" first="Gopalakrishna" last="Ramaswamy">Gopalakrishna Ramaswamy</name><affiliation><nlm:aff id="Aff5">Research and Development Unit, Genotypic Technology Private Limited, Bangalore, Karnataka 560094 India</nlm:aff><wicri:noCountry code="subfield">Karnataka 560094 India</wicri:noCountry></affiliation></author><author><name sortKey="Shasany, Ajit Kumar" sort="Shasany, Ajit Kumar" uniqKey="Shasany A" first="Ajit Kumar" last="Shasany">Ajit Kumar Shasany</name><affiliation><nlm:aff id="Aff1">Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">26017011</idno><idno type="pmc">4445982</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4445982</idno><idno type="RBID">PMC:4445982</idno><idno type="doi">10.1186/s12864-015-1640-z</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000586</idno><idno type="wicri:Area/Pmc/Curation">000585</idno><idno type="wicri:Area/Pmc/Checkpoint">000298</idno><idno type="wicri:Area/Ncbi/Merge">001B49</idno><idno type="wicri:Area/Ncbi/Curation">001B49</idno><idno type="wicri:Area/Ncbi/Checkpoint">001B49</idno><idno type="wicri:Area/Main/Merge">000382</idno><idno type="wicri:Area/Main/Curation">000382</idno><idno type="wicri:Area/Main/Exploration">000382</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Unravelling the genome of Holy basil: an “incomparable” “elixir of life” of traditional Indian medicine</title><author><name sortKey="Rastogi, Shubhra" sort="Rastogi, Shubhra" uniqKey="Rastogi S" first="Shubhra" last="Rastogi">Shubhra Rastogi</name><affiliation><nlm:aff id="Aff1">Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Kalra, Alok" sort="Kalra, Alok" uniqKey="Kalra A" first="Alok" last="Kalra">Alok Kalra</name><affiliation><nlm:aff id="Aff2">Microbial Technology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 Uttar Pradesh India</nlm:aff><wicri:noCountry code="subfield">226015 Uttar Pradesh India</wicri:noCountry></affiliation></author><author><name sortKey="Gupta, Vikrant" sort="Gupta, Vikrant" uniqKey="Gupta V" first="Vikrant" last="Gupta">Vikrant Gupta</name><affiliation><nlm:aff id="Aff1">Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Khan, Feroz" sort="Khan, Feroz" uniqKey="Khan F" first="Feroz" last="Khan">Feroz Khan</name><affiliation><nlm:aff id="Aff3">Metabolic and Structural Biology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Lal, Raj Kishori" sort="Lal, Raj Kishori" uniqKey="Lal R" first="Raj Kishori" last="Lal">Raj Kishori Lal</name><affiliation><nlm:aff id="Aff4">Genetics and Plant Breeding Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Tripathi, Anil Kumar" sort="Tripathi, Anil Kumar" uniqKey="Tripathi A" first="Anil Kumar" last="Tripathi">Anil Kumar Tripathi</name><affiliation><nlm:aff id="Aff1">Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author><author><name sortKey="Parameswaran, Sriram" sort="Parameswaran, Sriram" uniqKey="Parameswaran S" first="Sriram" last="Parameswaran">Sriram Parameswaran</name><affiliation><nlm:aff id="Aff5">Research and Development Unit, Genotypic Technology Private Limited, Bangalore, Karnataka 560094 India</nlm:aff><wicri:noCountry code="subfield">Karnataka 560094 India</wicri:noCountry></affiliation></author><author><name sortKey="Gopalakrishnan, Chellappa" sort="Gopalakrishnan, Chellappa" uniqKey="Gopalakrishnan C" first="Chellappa" last="Gopalakrishnan">Chellappa Gopalakrishnan</name><affiliation><nlm:aff id="Aff5">Research and Development Unit, Genotypic Technology Private Limited, Bangalore, Karnataka 560094 India</nlm:aff><wicri:noCountry code="subfield">Karnataka 560094 India</wicri:noCountry></affiliation></author><author><name sortKey="Ramaswamy, Gopalakrishna" sort="Ramaswamy, Gopalakrishna" uniqKey="Ramaswamy G" first="Gopalakrishna" last="Ramaswamy">Gopalakrishna Ramaswamy</name><affiliation><nlm:aff id="Aff5">Research and Development Unit, Genotypic Technology Private Limited, Bangalore, Karnataka 560094 India</nlm:aff><wicri:noCountry code="subfield">Karnataka 560094 India</wicri:noCountry></affiliation></author><author><name sortKey="Shasany, Ajit Kumar" sort="Shasany, Ajit Kumar" uniqKey="Shasany A" first="Ajit Kumar" last="Shasany">Ajit Kumar Shasany</name><affiliation><nlm:aff id="Aff1">Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, P.O. CIMAP, Lucknow, 226015 U.P. India</nlm:aff><wicri:noCountry code="subfield">226015 U.P. India</wicri:noCountry></affiliation></author></analytic><series><title level="j">BMC Genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p><italic>Ocimum sanctum</italic> L. (<italic>O. tenuiflorum</italic>) family-Lamiaceae is an important component of Indian tradition of medicine as well as culture around the world, and hence is known as “Holy basil” in India. This plant is mentioned in the ancient texts of Ayurveda as an “elixir of life” (life saving) herb and worshipped for over 3000 years due to its healing properties. Although used in various ailments, validation of molecules for differential activities is yet to be fully analyzed, as about 80 % of the patents on this plant are on extracts or the plant parts, and mainly focussed on essential oil components. With a view to understand the full metabolic potential of this plant whole nuclear and chloroplast genomes were sequenced for the first time combining the sequence data from 4 libraries and three NGS platforms.</p></sec><sec><title>Results</title><p>The saturated draft assembly of the genome was about 386 Mb, along with the plastid genome of 142,245 bp, turning out to be the smallest in Lamiaceae. In addition to SSR markers, 136 proteins were identified as homologous to five important plant genomes. Pathway analysis indicated an abundance of phenylpropanoids in <italic>O. sanctum</italic>. Phylogenetic analysis for chloroplast proteome placed <italic>Salvia miltiorrhiza</italic> as the nearest neighbor. Comparison of the chemical compounds and genes availability in <italic>O. sanctum</italic> and <italic>S. miltiorrhiza</italic> indicated the potential for the discovery of new active molecules.</p></sec><sec><title>Conclusion</title><p>The genome sequence and annotation of <italic>O. sanctum</italic> provides new insights into the function of genes and the medicinal nature of the metabolites synthesized in this plant. This information is highly beneficial for mining biosynthetic pathways for important metabolites in related species.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12864-015-1640-z) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Darrah, Hh" uniqKey="Darrah H">HH Darrah</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gupta, Sk" uniqKey="Gupta S">SK Gupta</name></author><author><name sortKey="Prakash, J" uniqKey="Prakash J">J Prakash</name></author><author><name sortKey="Srivastava, S" uniqKey="Srivastava S">S Srivastava</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Uma Devi, P" uniqKey="Uma Devi P">P Uma Devi</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Singh, N" 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sortKey="Lal, Raj Kishori" sort="Lal, Raj Kishori" uniqKey="Lal R" first="Raj Kishori" last="Lal">Raj Kishori Lal</name><name sortKey="Parameswaran, Sriram" sort="Parameswaran, Sriram" uniqKey="Parameswaran S" first="Sriram" last="Parameswaran">Sriram Parameswaran</name><name sortKey="Ramaswamy, Gopalakrishna" sort="Ramaswamy, Gopalakrishna" uniqKey="Ramaswamy G" first="Gopalakrishna" last="Ramaswamy">Gopalakrishna Ramaswamy</name><name sortKey="Rastogi, Shubhra" sort="Rastogi, Shubhra" uniqKey="Rastogi S" first="Shubhra" last="Rastogi">Shubhra Rastogi</name><name sortKey="Shasany, Ajit Kumar" sort="Shasany, Ajit Kumar" uniqKey="Shasany A" first="Ajit Kumar" last="Shasany">Ajit Kumar Shasany</name><name sortKey="Tripathi, Anil Kumar" sort="Tripathi, Anil Kumar" uniqKey="Tripathi A" first="Anil Kumar" last="Tripathi">Anil Kumar Tripathi</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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