Evaluating five different loci (rbcL, rpoB, rpoC1, matK, and ITS) for DNA barcoding of Indian orchids

Genome Génome / Conseil National De Recherches Canada
Iffat ParveenShashi B Babbar

Abstract

Orchidaceae, one of the largest families of angiosperms, is represented in India by 1600 species distributed in diverse habitats. Orchids are in high demand owing to their beautiful flowers and therapeutic properties. Overexploitation and habitat destruction have made many orchid species endangered. In the absence of effective identification methods, illicit trade of orchids continues unabated. Considering DNA barcoding as a potential identification tool, species discrimination capability of five loci, ITS, matK, rbcL, rpoB, and rpoC1, was tested in 393 accessions of 94 Indian orchid species belonging to 47 genera, including one listed in Appendix I of CITES and 26 medicinal species. ITS provided the highest species discrimination rate of 94.9%. While, among the chloroplast loci, matK provided the highest species discrimination rate of 85.7%. None of the tested loci individually discriminated 100% of the species. Therefore, multi-locus combinations of up to five loci were tested for their species resolution capability. Among two-locus combinations, the maximum species resolution (86.7%) was provided by ITS+matK. ITS and matK sequences of the medicinal orchids were species specific, thus providing unique molecular identification...Continue Reading

References

Mar 5, 2003·Proceedings. Biological Sciences·Paul D N HebertJeremy R deWaard
Sep 4, 2003·Proceedings. Biological Sciences·Paul D N HebertJeremy R deWaard
Nov 15, 2003·Molecular Phylogenetics and Evolution·I Alvarez, J F Wendel
May 4, 2004·Molecular Phylogenetics and Evolution·Kenneth M Cameron
Jun 2, 2005·Proceedings of the National Academy of Sciences of the United States of America·W John KressDaniel H Janzen
Apr 26, 2006·Phytomedicine : International Journal of Phytotherapy and Phytopharmacology·C-C TsengK-T Cheng
May 10, 2007·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Feb 9, 2008·Proceedings of the National Academy of Sciences of the United States of America·Renaud LahayeVincent Savolainen
Apr 10, 2008·Systematic Biology·Howard A RossWai Lok Sibon Li
Aug 12, 2009·Proceedings of the National Academy of Sciences of the United States of America·UNKNOWN CBOL Plant Working Group
Sep 21, 2010·Fitoterapia·Mohammad Musharof Hossain
Apr 5, 2011·Molecular Ecology Resources·Chris YessonJulie A Hawkins
May 1, 2009·Molecular Ecology Resources·Julian R StarrBrianna N Chouinard
May 14, 2011·Molecular Ecology Resources·Bao-Qing RenZhi-Duan Chen
Jun 4, 2011·PloS One·Peter M HollingsworthDamon P Little
Feb 1, 1999·American Journal of Botany·K M CameronD H Goldman
Sep 29, 2011·Molecular Ecology Resources·Iffat ParveenShashi B Babbar
Nov 22, 2011·Proceedings of the National Academy of Sciences of the United States of America·UNKNOWN China Plant BOL GroupGuang-Wen Duan
Nov 24, 2011·Proceedings of the National Academy of Sciences of the United States of America·Peter M Hollingsworth
Nov 26, 2013·Molecular Ecology Resources·Hye Min KimChong-Wook Park
Jan 12, 2016·PloS One·Yan-Yan GuoXiao-Quan Wang

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.