@article { ISI:000244926000019, title = {Genetic diversity analysis in Gaultheria fragrantissima wall. (Ericaceae) from the two biodiversity hotspots in India using ISSR markers}, journal = {Current Science}, volume = {91}, number = {12}, year = {2006}, month = {DEC}, pages = {1634-1640}, publisher = {CURRENT SCIENCE ASSN}, type = {Article}, address = {C V RAMAN AVENUE, PO BOX 8005, BANGALORE 560 080, INDIA}, abstract = {

Our study involves Inter Simple Sequence Repeat markers to analyse genetic diversity of an undershrub, Gaultheria fragrantissima Wall. (Ericaceae) from two plant diversity hotspots in India, namely Western Ghats and Northeastern Himalayas. The plants from these two regions show no morphological differences but the total heterozygosity (H-T = 0.505) is high. Furthermore, the average heterozygosity of G. fragrantissima at WG (H-s = 0.433) is higher than that at NE region (H-s, = 0.231). Within population variance is higher (15.56 \%) than among population variance (8.31 \%) as seen in outcrossing plant species. Mantel{\textquoteright}s test shows a strong positive correlation between the genetic and geographic distances. The plants within WG show high gene flow, which may be enough to prevent genetic drift, however, the gene flow in NE population is very low.

}, keywords = {Gaultheria fragrantissima, Genetic diversity, heterozygosity, ISSR markers}, issn = {0011-3891}, author = {Apte, G. S. and Bahulikar, R. A. and Kulkarni, R. S. and Lagu, Meena D. and Kulkarni, B. G. and Suresh, H. S. and Rao, P. S. N. and Gupta, V. S.} } @article { ISI:000249699500005, title = {Mitochondrial haplotypes reveal a strong genetic structure for three Indian sheep breeds}, journal = {Animal Genetics}, volume = {38}, number = {5}, year = {2007}, month = {OCT}, pages = {460-466}, publisher = {BLACKWELL PUBLISHING}, type = {Article}, address = {9600 GARSINGTON RD, OXFORD OX4 2DQ, OXON, ENGLAND}, abstract = {

This survey represents the first characterization of mitochondrial DNA diversity within three breeds of Indian sheep (two strains of the Deccani breed, as well as the Bannur and Garole breeds) from different geographic regions and with divergent phenotypic characteristics. A 1061-bp fragment of the mitochondrial genome spanning the control region, a portion of the 12S rRNA gene and the complete phenyl tRNA gene, was sequenced from 73 animals and compared with the corresponding published sequence from European and Asian breeds and the European Mouflon (Ovis musimon). Analysis of all 156 sequences revealed 73 haplotypes, 52 of which belonged to the Indian breeds. The three Indian breeds had no haplotypes in common, but one Indian haplotype was shared with European and other Asian breeds. The highest nucleotide and haplotype diversity was observed in the Bannur breed (0.00355 and 0.981 respectively), while the minimum was in the Sangamneri strain of the Deccani breed (0.00167 and 0.882 respectively). All 52 Indian haplotypes belonged to mitochondrial lineage A. Therefore, these Indian sheep are distinct from other Asian and European breeds studied so far. The relationships among the haplotypes showed strong breed structure and almost no introgression among these Indian breeds, consistent with Indian sheep husbandry, which discourages genetic exchange between breeds. These results have implications for the conservation of India{\textquoteright}s ovine biodiversity and suggest a common origin for the breeds investigated.

}, keywords = {Genetic diversity, Indian sheep, mitochondrial DNA, mitochondrial lineage, phylogeographic distribution, sheep domestication}, issn = {0268-9146}, doi = {10.1111/j.1365-2052.2007.01636.x}, author = {Pardeshi, V. C. and Kadoo, Narendra Y. and Sainani, Mohini N. and Meadows, J. R. S. and Kijas, J. W. and Gupta, Vidya S.} } @article { ISI:000272180600002, title = {Phylogeographical studies in disjunct populations of symplocos laurina wall. using cytoplasmic PCR-RFLP approach}, journal = {Tree Genetics \& Genomes}, volume = {6}, number = {1}, year = {2010}, month = {DEC}, pages = {13-23}, publisher = {SPRINGER HEIDELBERG}, address = {TIERGARTENSTRASSE 17, D-69121 HEIDELBERG, GERMANY}, abstract = {

Genetic variation, haplotype relationships, and potential regions of diversity in Symplocos laurina Wall. (Symplocaceae), a montane tree species from India, have been tested using molecular and biogeographical data to infer phylogeographic patterns. The polymerase chain reaction-restriction fragment length polymorphism technique was used to determine the chloroplast (cp) and mitochondrial (mt) DNA haplotypes of 218 individuals from 12 populations, collected from Northeast India (NEI), which is a part of Indo-Burma biodiversity hotspot, and South India, which includes the Western Ghats (WG), another biodiversity hotspot from India and Eastern Ghats (EG). Nine cpDNA (chlorotypes) and 24 mtDNA haplotypes (mitotypes) were identified; the WG region was identified as the most diverse for chlorotypes and the NEI region for mitotypes. Although a strong population differentiation was observed, phylogeographic structure was found to be absent for both the genomes. The haplotype network revealed the presence of two main lineages: NEI-WG lineage and EG lineage, largely without overlapping distributions. The study tests two hypotheses, namely vicariance and dispersal, to understand the distribution of plants in India. The population structure of S. laurina strongly suggests the persistence of the species in putative refugial areas preglaciation and further establishment of other populations of S. laurina from these refugial populations.

}, keywords = {Cytoplasmic genome, Genetic diversity, Phylogeography}, issn = {1614-2942}, doi = {10.1007/s11295-009-0224-y}, author = {Banu, Sofia and Lagu, Meena D. and Gupta, Vidya S.} } @article { ISI:000273084000005, title = {Understanding the genetic structure of symplocos laurina wall. populations using nuclear gene markers}, journal = {Genetica}, volume = {138}, number = {2}, year = {2010}, month = {FEB}, pages = {197-210}, publisher = {SPRINGER}, address = {VAN GODEWIJCKSTRAAT 30, 3311 GZ DORDRECHT, NETHERLANDS}, abstract = {

To characterize the genetic diversity of present populations of Symplocos laurina, which grow in the montane forests in India, we analyzed the DNA sequences of a nuclear gene. Using the 881 bp sequence of cytosolic Glyceraldehyde-3-phosphate dehydrogenase gene, we detected 24 haplotypes among 195 individuals sampled from 14 populations. Two dominant haplotypes were distributed over the entire range of this species in India and several private haplotypes were found. Low genetic diversity within population, high differentiation, number of population specific haplotypes and deviation from neutral evolution characterized the present populations of S. laurina. An analysis of molecular variance indicated the presence of geographic structure within the haplotype distribution. The occurrence of S. laurina preglaciation in India is the most parsimonious explanation for the current geographic structure observed. The populations are presumably ancient and might have spread across its extant distribution range in India through a recent range expansion event.

}, keywords = {GapC, Genetic diversity, Glaciation, Refugium}, issn = {0016-6707}, doi = {10.1007/s10709-009-9410-y}, author = {Banu, Sofia and Bhagwat, Rasika M. and Kadoo, Narendra Y. and Lagu, Meena D. and Gupta, V. S.} } @article { ISI:000346371700012, title = {Evaluation of genetic variability in Symplocos laurina Wall. from two biodiversity hotspots of India}, journal = {Plant Systematics and Evolution}, volume = {300}, number = {10}, year = {2014}, month = {DEC}, pages = {2239-2247}, publisher = {SPRINGER WIEN}, address = {SACHSENPLATZ 4-6, PO BOX 89, A-1201 WIEN, AUSTRIA}, abstract = {

Symplocos laurina Wall., an important medicinal tree species, is one of the pioneering plants for establishment of shola forest ecosystem. We analyzed 208 accessions of S. laurina from 13 populations belonging to three ecoregions in India namely, Western Ghats, Eastern Ghats and Northeast India, to comment on the genetic diversity and population structure of the species. Of the 100 inter simple sequence repeat primers screened, eight were selected based on their clear and reproducible polymorphic patterns. These eight ISSR primers produced on an average 1,014 bands from 208 accessions, of which 6.58 \% were rare bands, 55.96 \% were shared bands and 37.46 \% were similar bands. The primers, UBC835 and UBC880, amplified the highest number of polymorphic loci (16), while the primer UBC852 amplified the least number of amplicons (9). The values for total genetic diversity (H-T) and the average heterozygosity (H-S) were 0.3407 and 0.2263, respectively; while the coefficient of genetic differentiation (G(ST)) was 0.3358. Within-population variance was higher (68 \%) than among-population variance (17 \%), indicating high intra-population genetic diversity. These populations were grouped according to their geographical location in cluster analysis. Mantel test also showed significant positive correlation between genetic and geographical distances. The present study revealed the importance of the Palghat gap in South India in shaping the distribution of genetic diversity in S. laurina.

}, keywords = {Biodiversity hotspots, Genetic diversity, ISSR, Palghat gap, Symplocos laurina}, issn = {0378-2697}, doi = {10.1007/s00606-014-1046-4}, author = {Bhagwat, Rasika M. and Banu, Sofia and Dholakia, Bhushan B. and Kadoo, Narendra Y. and Lagu, Meena D. and Gupta, Vidya S.} } @article {43896, title = {Genetic variability in Indian populations of banana corm weevil [Cosmopolites sordidus (Coleoptera: Curculionidae)] assessed by RAPDs and AFLPs}, journal = {International Journal of Tropical Insect Science}, volume = {37}, year = {2017}, month = {SEP}, chapter = {149-162}, abstract = {

Cosmopolites sordidus (Germar), commonly known as banana corm weevil, is an important economic pest in Asia that can cause severe yield loss depending upon the stage at which infestation occurs. In spite of its economic importance, little is known about the population structure of this pest in India. Random amplified polymorphic DNA (RAPD) and amplified fragment length polymorphism (AFLP) were used to characterize the population genetic structure of C. sordidus collected from five hot spot locations in India. Nineteen RAPD primers and five selective AFLP primer combinations generated 147 and 304 amplification products, respectively. UPGMA dendrograms generated with both marker systems failed to reveal populations clustered based on geographic distance, which was confirmed by the Mantel test, which did not show a strong correlation between genetic distance and geographic distance. Values of indices of genetic identity showed that the populations were closely related. Though the gene flow estimate (Nm) between the populations was 0.469, suggesting restricted gene flow, the populations are not genetically distinct. These observations suggest that the range expansion of this banana pest in India has taken place through transport of infested corms and plant material, resulting in genetically close populations that are geographically distinct. These results provide important information on the population structure of this pest in India, which will aid in designing suitable strategies for its control and management, especially with respect to insecticide resistance.

}, keywords = {Aflps, Arbitrary Primers, Bemisia-tabaci, Cosmopolites Sordidus, diversity, Genetic diversity, Germar Coleoptera, insecticide resistance, Markers, Musa Spp., Pcr, Rapds, Restricted Gene Flow Natural-populations, Scirpophaga-incertulas}, doi = {10.1017/S1742758417000108}, author = {Yadav, Sweta Kumari U. and Singh, Jyotsna and Padmanaban, B. and Kumar, Lalitha Sunil} } @article {46699, title = {Characterization of multidrug resistance in Vibriospecies isolated from marine invertebrates from Andaman Sea}, journal = {3 Biotech}, volume = {10}, year = {2020}, month = {SEP}, pages = {456}, type = {Article}, abstract = {

This study describes the abundance of multidrug-resistantVibriosassociated with marine invertebrate hosts from the Andaman Sea, India. Thirty-eightVibriostrains were isolated from surface mucus layers of coralPorites,Goniastrea, Pocillopora, Fungia, and eggs of spiny lobster (Panulirus penicillatus). Phenotypically, the majority of strains exhibited growth at a wide range of temperatures, salt tolerance, and diverse nutritional requirements. All the strains had more than 97\% 16S rRNA sequence similarity with type species of the genusVibriowhereVibrio fortis, andVibrio alginolyticuswere predominant. Multilocus Sequence Analysis (MLSA) using eight housekeeping genes namelyftsZ,gapA,gyrB,mreB,pyrH,recA,rpoA,andtopAdistributed the strains into 6 reported clades i.e.,Harveyi, Ponticus, Nereis, Orientalis, Splendidus,andMediterraneiwhere nearly half of the total strains represented the cladeHarveyi, followed by the cladeSplendidus.Likewise, the PFGE profile indicated genomic heterogeneity among the strains resulting in their distribution in five major clusters. Resistance to different antimicrobials was tested following the disc diffusion method where all strains were found susceptible to chloramphenicol (30 mu g) and resistant to streptomycin (10 mu g), vancomycin (30 mu g), sulfamethoxazole-trimethoprim (25 mu g). Moreover, the resistant phenotype to other antimicrobials confirmed the abundance of multidrug resistance strains in this marine environment.

}, keywords = {Drug-resistant, Genetic diversity, marine invertebrate, Multilocus sequence analysis, Vibrio}, issn = {2190-572X}, doi = {10.1007/s13205-020-02445-5}, author = {Kumari, Prabla and Poddar, Abhijit and Das, Subrata K.} } @article {48194, title = {Diversity assessment of Gloriosa superba accessions from Western Ghats of India based on morphological traits, ISSR markers and metabolite content}, journal = {Journal of Applied Research on Medicinal and Aromatic Plants}, volume = {30}, year = {2022}, month = {SEP}, pages = {100388}, type = {Article}, abstract = {

Gloriosa superba L. (glory lily) is a medicinally and horticulturally important plant used as a commercial source of the alkaloid colchicine. The Western Ghats in India is mostly unexplored for the morphological, genetic, and metabolite diversity of the species. In the current study, three methodologies were employed to assess the diversity among 50 established accessions of G. superba collected from several locations in the Western Ghats. The morphological analysis revealed that, among the studied traits, seed yield per vine and dry seed weight per 100 seeds for the established accessions were the most diverse traits. The former exhibited a significantly positive correlation with four vegetative and five yield traits. The first three principal components showed nine traits contributing to the variation. Intra-specific molecular variation based on inter simple sequence repeat markers distributed the accessions in three clusters with high polymorphism and low genetic diversity indices. Liquid chromatography high-resolution mass spectrometry analysis revealed significant variation among the screened accessions for colchicine content in tuber and seed tissue. Interestingly, an unexplored tissue, pod shell, was found to contain significantly high colchicine, which could be explored for commercial colchicine extraction. The morphogenetic and metabolite variation revealed by the study would be useful to develop elite varieties to expand the cultivation of glory lily across the country, fulfilling the increasing demand for colchicine and providing remunerative income to the farmers.

}, keywords = {Colchicine, Genetic diversity, Gloriosa superba, Metabolite diversity, Morphological diversity, Western Ghats}, doi = {10.1016/j.jarmap.2022.100388}, author = {Mahajan, Yogesh A. and Shinde, Balkrishna A. and Mulani, Fayaj A. and Gade, Akshay B. and Kasodekar, Amol K. and Thulasiram, H. V. and Kadoo, Narendra Y. and Nikam, Tukaram D.} }