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Prospects for discriminating Zingiberaceae species in India using DNA barcodes

Journal of Integrative Plant Biology 2014年第8期56卷 760-773页

作者： Meenakshi Ramaswamy Vinitha Unnikrishnan Suresh Kumar kizhakkethil aishwarya Mamiyil Sabu George Thomas Plant Molecular Biology Rajiv Gandhi Centre for BiotechnologyThiruvananthapuram Kerala 695014 India Regional Facility for DNA Fingerprinting Rajiv Gandhi Centre for BiotechnologyThiruvananthapuram Kerala 695014 India Department of Botany University of Calicut

We evaluated nine plastid （matK, rbcL, rpoCl, rpoB, rp136-rpsS, ndhJ, trnL-F, tmrnH-psbA, accD） and two nuclear （ITS and ITS2） barcode loci in family Zingiberaceae by analyzing 60 accessions of 20 species belonging to seven genera from India. Bidirectional sequences were recovered for every plastid locus by direct sequencing of polymerase chain reaction （PCR） amplicons in all the accessions tested. However, only 35 （58%） and 4o accessions （66~） yielded ITS and ITS2 sequences, respectively, by direct sequencing. In different bioinformatics analyses, matK and rbcL consistently resolved 15 species （75%） into monophyletic groups and five species into two para- phyletic groups. The 173 ITS sequences, including 138 cloned sequences from 23 accessions, discriminated only 12 species （6o%）, and the remaining species were entered into three paraphyletic groups. Phylogenetic and genealogic analyses of plastid and ITS sequences imply the possible occurrence ofnatural hybridizations in the evolutionary past in giving rise to species paraphyly and intragenomic ITS heterogeneity in the species tested. The results support using matK and rbcL loci for barcoding Zingiberaceae members and highlight the poor utility of iTS and the highly regarded ITS2 in barcoding this family, and also caution against proposing ITS loci for barcoding taxa based on limited sampling.

关键词： Concerted evolution DNA barcoding ITS heterogeneity natural hybridizations Zingiberaceae

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Overlap in oncogenic and pro-inflammatory pathways associated with areca nut and nicotine exposure

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Cancer Pathogenesis and Therapy 2024年第3期2卷 187-194页

作者： Krati Garg Anuj Kumar Vidisha kizhakkethil Pramod Kumar Shalini Singh Department of Biochemical Engineering and Biotechnology Indian Institute of Technology(IIT)DelhiDelhi 110016India Division of Molecular Biology ICMR-National Institute of Cancer Prevention and Research(ICMR-NICPR)Indian Council of Medical ResearchNoidaUttar Pradesh 201301India Department of Biotechnology Vellore Institute of Technology(VIT)VelloreTamil Nadu 632024India ICMR-National Institute of Cancer Prevention&Research(ICMR-NICPR) Indian Council of Medical ResearchNoidaUttar Pradesh 201301India

Background:Betel nut/areca nut/Areca catechu is one of the most commonly used psychoactive substance,and is also a major preventable cause of *** other psychoactive substances,such as nicotine,the mechanisms underlying addiction to areca nuts and related oncogenesis remain *** reports suggest a possible overlap in the mechanisms of action of nicotine and areca nuts in the human ***,this study aimed to investigate the interactome of human proteins associated with areca nut exposure and the intricate similarities and differences in the effects of the two psychoactive substances on ***:A list of proteins associated with areca nut use was obtained from the available literature using terms from Medical Subject Headings(MeSH).Protein-protein interaction(PPI)networks and functional enrichment were *** results obtained for both psychoactive substances were ***:Given the limited number of common proteins(36/226,16%)in the two sets,a substantial overlap(612/1176 nodes,52%)was observed in the PPI networks,as well as in Gene *** nuts mainly affect signaling pathways through three hub proteins(alpha serine/threonine-protein kinase,tumor protein 53,and interleukin-6),which are common to both psychoactive substances,as well as two unique hub proteins(epidermal growth factor receptor and master regulator of cell cycle entry and proliferative metabolism).Areca nut-related proteins are associated with unique pathways,such as extracellular matrix organization,lipid storage,and metabolism,which are not found in nicotine-associated ***:Areca nuts affect regulatory mechanisms,leading to systemic toxicity and *** nuts also affect unique pathways that can be studied as potential markers of exposure,as well as targets for anticancer therapeutic agents.

关键词： Cancer Areca nut Nicotine Interactome Cell signaling

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