Molecular characterization of Vigna marina (Burm.f.) Merr. from the Andaman and Nicobar Islands for salt tolerance using SSR markers

Abstract Beachpea (Vigna marina) is a halophytic wild leguminous plant which occurs throughout tropical and subtropical beaches of world. As quantitative trait loci (QTLs) for salt tolerance in V. marina and its crossability with other Vigna species are known, the current study was undertaken to know the presence of these QTLs in the V. marina accessions along with check varieties of pulses. Accordingly, 20 Vigna genotypes (15 accessions of V. marina collected from sea-shore areas of Andaman and Nicobar Islands along with five check varieties of green gram and black gram) were subjected to molecular characterization using seven simple sequence repeat (SSR) markers associated with salt tolerance. Of the markers used, only four SSR markers amplified in the studied germplasm. Number of alleles detected per primer and size of alleles ranged from 1 to 3 and 100 to 325 bp, respectively. Polymorphism information content and heterozygosity values ranged from 0.305 to 0.537 and 0.375 to 0.612, respectively. Three major clusters, cluster I, II and III were obtained at Jaccard's similarity coefficient value of 0.48 through the un-weighted paired group method with arithmetic means method of cluster analysis. It grouped green gram and black gram genotypes in clusters I (04) and II (01), whereas all V. marina genotypes were grouped in cluster III (15). Principal co-ordinate analysis explained 85.9% of genetic variation among genotypes which was further confirmed by cluster analysis. This study indicated the effectiveness of SSR markers in separating cultivated Vigna species from wild V. marina. The findings will be useful for transferring trait of robust salt tolerance of V. marina in cultivated Vigna species using marker-assisted breeding.

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Morpho-Molecular Characterization and Screening of Rice (Oryza Sativa L.) Genotypes for Salinity Tolerance at Seedling Stage

SAARC Journal of Agriculture ◽

10.3329/sja.v18i2.51104 ◽

2021 ◽

Vol 18 (2) ◽

pp. 1-15

Author(s):

SAA Muti ◽

MI Hoque ◽

MM Islam ◽

MA Siddique ◽

MS Islam

Keyword(s):

Salt Tolerance ◽

Molecular Characterization ◽

Ssr Markers ◽

Oryza Sativa L ◽

Seedling Stage ◽

Group Method ◽

Rice Varieties ◽

Pair Group ◽

Rice Genotypes ◽

Near Future

Salinity is one of the major abiotic stresses which severely affect the production of crops across the world. Twenty rice genotypes of diverse origins were assessed to examine salt tolerance potentiality at seedling stage as well as to elucidate the genetic variation using SSR markers. Consequently, IRRI standard protocol was applied to screen out those varieties for tolerance at the glasshouse laboratory of Bangladesh Institute of Nuclear Agriculture, maintaining salt stress level at 6dS m-1, 8dS m-1, 10dS m-1 and 12 dS m-1. Data on morphological parameter were recorded as shoot length (cm), root length (cm) and total dry matter (TDM). For molecular characterization thirteen SSR markers were exploited to determine the genetic diversity and in this context, 53alleles were revealed while the mean number of alleles per locus was 4.The Polymorphism Information Content (PIC) value ranged from 0.37- 0.78 having an average of 0.58. The Un-weighted Pair Group Method with Arithmetic Mean (UPGMA) displayed three major clusters including some sub-clusters, where in Cluster 1, Binadhan- 8, Binadhan-10, Pokkali and FL478 were very close in their vicinity. Information obtained from this experiment, thus can be taken into account for stress breeding program and prospective genetic materials could be utilized for exploring the genetic architecture in favor of salt tolerance as well as for developing better salt tolerant rice varieties in near future. SAARC J. Agri., 18(2): 1-15 (2020)

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Molecular Characterization of Muscle Infecting Myxobolus sp. Causing Outbreak in Labeo rohita, Rohu: First Report from Andaman Islands

Indian Journal of Animal Research ◽

10.18805/ijar.b-3931 ◽

2020 ◽

Author(s):

K Saravanan ◽

Shailesh Kumar ◽

J Praveenraj ◽

B L Meena ◽

B L Kasinath

Keyword(s):

Molecular Characterization ◽

Clinical Signs ◽

The Body ◽

Andaman And Nicobar Islands ◽

Phylogenetic Tree Analysis ◽

Spinal Curvatures ◽

First Report ◽

Freshwater Aquaculture ◽

Nicobar Islands ◽

Loss Of Appetite

Among the myxozoan parasites, the genus Myxobolus is considered as the emerging parasite in freshwater aquaculture. In the present study, a disease outbreak associated with mass mortality was investigated in a carp farm located at North and Middle Andaman district of Andaman and Nicobar Islands. The affected rohu fry exhibited the clinical signs such as lethargic movement, dark body colouration, loss of appetite, excess mucus secretion, 1-2 mm multifocal white nodules on the body surface and skeletal deformities including spinal curvatures. Molecular characterization using 18S rRNA along with clinical signs identified the causative agent as muscle infecting Myxobolus sp. (GenBank accession number MK128509) which showed 95.45% identity with Myxobolus musculi and 95.23% identity with Myxobolus pseudodispar. Genetic distance and phylogenetic tree analysis were performed to elucidate the relationship between the Myxobolus sp. obtained in the present study and the members of other congeners. This investigation serves as the first report of Myxobolus sp. outbreak from Andaman and Nicobar Islands and also reiterates the need for implementation of strict biosecurity measures to preserve the freshwater aquatic fauna of these Islands.

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Ascidian diversity (Chordata: Tunicata) from Andaman and Nicobar Islands, India

Oceanological and Hydrobiological Studies ◽

10.1515/ohs-2018-0012 ◽

2018 ◽

Vol 47 (2) ◽

pp. 107-117 ◽

Cited By ~ 1

Author(s):

Rajaram Murugan ◽

Gnanakkan Ananthan

Keyword(s):

Cluster Analysis ◽

Species Richness ◽

Hot Spots ◽

Field Research ◽

Wiener Index ◽

Diversity Indices ◽

Economic Importance ◽

Andaman And Nicobar Islands ◽

Nicobar Islands ◽

The Rich

Abstract Ascidians are filter-feeding sac-like marine urochordates of great evolutionary, ecological and economic importance. Andaman and Nicobar Islands are one of the most important hot spots of biodiversity in India, while the ascidian diversity of this region is very scanty. Ascidians belonging to 29 species were identified at the Andaman and Nicobar Islands during the field research carried out from March 2014 to April 2015. Eight species (Didemnum granulatum, Didemnum molle, Didemnum psammatodes, Diplosoma listerianum, Lissoclinum fragile, Lissoclinum levitum, Lissoclinum patella, Trididemnum Cyclops) from the Didemnidae family were found and identified. Various diversity indices, such as the Shannon -Wiener index (H’), Margalef’s index (D), Pielou’s index (J’), K-dominance curves, Cluster Analysis and Multidimensional Scaling, were used to analyze the diversity, richness and evenness of species, and to compare the diversity between samples and their resemblance in terms of species composition. The maximum species richness was observed in Campbell Bay (2.424) and the minimum in Haddo Wharf (0.910). This finding shows the rich species diversity of ascidian fauna at Andaman and Nicobar Islands.

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Functional and molecular characterization of a lipopeptide surfactant from the marine sponge-associated eubacteria Bacillus licheniformis NIOT-AMKV06 of Andaman and Nicobar Islands, India

Marine Pollution Bulletin ◽

10.1016/j.marpolbul.2014.03.018 ◽

2014 ◽

Vol 82 (1-2) ◽

pp. 76-85 ◽

Cited By ~ 20

Author(s):

Anburajan Lawrance ◽

Meena Balakrishnan ◽

Toms Cheriath Joseph ◽

Dheenan Palaiya Sukumaran ◽

Vinithkumar Nambali Valsalan ◽

...

Keyword(s):

Molecular Characterization ◽

Bacillus Licheniformis ◽

Marine Sponge ◽

Andaman And Nicobar Islands ◽

Nicobar Islands

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Enterococcus species diversity and molecular characterization of biomarker genes in Enterococcus faecalis in Port Blair Bay, Andaman and Nicobar Islands, India

Marine Pollution Bulletin ◽

10.1016/j.marpolbul.2015.02.027 ◽

2015 ◽

Vol 94 (1-2) ◽

pp. 217-227 ◽

Cited By ~ 7

Author(s):

Balakrishnan Meena ◽

Lawrance Anburajan ◽

Thadikamala Sathish ◽

Rangamaran Vijaya Raghavan ◽

Dilip Kumar Jha ◽

...

Keyword(s):

Species Diversity ◽

Molecular Characterization ◽

Enterococcus Faecalis ◽

Enterococcus Species ◽

Andaman And Nicobar Islands ◽

Nicobar Islands

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Morphological and Genetic diversity among farmers’ varieties of urdbean (Vigna mungo L.) Hepper of Andaman and Nicobar Islands Agro-Ecosystem

Legume Research - An International Journal ◽

10.18805/lr-3956 ◽

2018 ◽

Author(s):

Awnindra K. Singh ◽

Utpal Biswas ◽

R. Rahul Kumar ◽

S. Swain ◽

T. P. Swarnam

Keyword(s):

Genetic Diversity ◽

Cluster Analysis ◽

Agronomic Traits ◽

Andaman And Nicobar Islands ◽

Geographical Isolation ◽

Distance Analysis ◽

Pair Group ◽

Cluster Distance ◽

Viii And Ix ◽

Nicobar Islands

The extent of morphological variation among farmers’ varieties of urdbean was assessed using 21 DUS and 9 agronomic parameters. A set of 56 farmers’ varieties collected from different parts of the Andaman Islands were assessed for genetic diversity. Cluster analysis assigned farmers’ varieties into groups on the basis of agronomic performance rather than their origin and was identified 9 homogeneous clusters, it was able to separate 56 farmers’ varieties based on morphological and agronomic traits. Using cluster analysis by unweighted pair group with arithmetic mean (UPGMA) method and grouping of all farmers’ varieties exhibited the presence of wide genetic diversity by the formation of 9 clusters. Cluste- I had maximum number of farmers’ varieties i.e. 26 while, cluster VIII had only one (ANFVU-11-29). The pattern of distribution of farmers’ varieties into clusters assigned on the basis of agro-morphological performance and demonstrating that geographical isolation may not be the only factor causing genetic diversity. Intra cluster distance analysis revealed that minimum intra cluster distance was observed in cluster I. The maximum inter cluster distance has to be found in cluster VIII and IX. Therefore, it was concluded that more emphasis should be given on cluster I, II, VIII and IX for selecting farmers’ varieties as parents for crossing with the farmers’ varieties of cluster I which may produce new recombinants with desired traits.

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Application of SSR Technique for the Identification of Markers Linked to Salinity Tolerance in Rice

Progressive Agriculture ◽

10.3329/pa.v19i2.16929 ◽

2013 ◽

Vol 19 (2) ◽

pp. 57-65

Author(s):

MH Kabir ◽

MM Islam ◽

SN Begum ◽

AC Manidas

Keyword(s):

Salt Tolerance ◽

Ssr Markers ◽

Salinity Tolerance ◽

Seedling Stage ◽

Phenotypic Screening ◽

Salt Tolerant ◽

Marker Assisted Breeding ◽

Hydroponic System ◽

Rice Landrace ◽

Salt Susceptible

A cross was made between high yielding salt susceptible BINA variety (Binadhan-5) with salt tolerant rice landrace (Harkuch) to identify salt tolerant rice lines. Thirty six F3 rice lines of Binadhan-5 x Harkuch were tested for salinity tolerance at the seedling stage in hydroponic system using nutrient solution. In F3 population, six lines were found as salt tolerant and 10 lines were moderately tolerant based on phenotypic screening at the seedling stage. Twelve SSR markers were used for parental survey and among them three polymorphic SSR markers viz., OSR34, RM443 and RM169 were selected to evaluate 26 F3 rice lines for salt tolerance. With respect to marker OSR34, 15 lines were identified as salt tolerant, 9 lines were susceptible and 2 lines were heterozygous. While RM443 identified 3 tolerant, 14 susceptible and 9 heterozygous rice lines. Eight tolerant, 11 susceptible and 7 heterozygous lines were identified with the marker RM169. Thus the tested markers could be efficiently used for tagging salt tolerant genes in marker-assisted breeding programme.DOI: http://dx.doi.org/10.3329/pa.v19i2.16929 Progress. Agric. 19(2): 57 - 65, 2008

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Studies on the Shallow-Water Starfishes of the Andaman and Nicobar Islands

Mitteilungen aus dem Museum für Naturkunde in Berlin Zoologisches Museum und Institut für Spezielle Zoologie (Berlin) ◽

10.1002/mmnz.4830540208 ◽

1978 ◽

Vol 54 (2) ◽

pp. 345-351

Author(s):

J. M. Julka ◽

Sumita Das

Keyword(s):

Shallow Water ◽

Andaman And Nicobar Islands ◽

Nicobar Islands

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Assessment of the Genetic Diversity of Rice Germplasms Characterized by Black-Purple and Red Pericarp Color Using Simple Sequence Repeat Markers

Plants ◽

10.3390/plants8110471 ◽

2019 ◽

Vol 8 (11) ◽

pp. 471

Author(s):

Jae-Ryoung Park ◽

Won-Tae Yang ◽

Yong-Sham Kwon ◽

Hyeon-Nam Kim ◽

Kyung-Min Kim ◽

...

Keyword(s):

Genetic Diversity ◽

Ssr Markers ◽

Simple Sequence Repeat ◽

Germplasm Collection ◽

Group Method ◽

Sequence Repeat ◽

Rice Varieties ◽

Red Pericarp ◽

Simple Sequence ◽

Colored Rice

The assessment of the genetic diversity within germplasm collections can be accomplished using simple sequence repeat (SSR) markers and association mapping techniques. The present study was conducted to evaluate the genetic diversity of a colored rice germplasm collection containing 376 black-purple rice samples and 172 red pericarp samples, conserved by Dong-A University. There were 600 pairs of SSR primers screened against 11 rice varieties. Sixteen informative primer pairs were selected, having high polymorphism information content (PIC) values, which were then used to assess the genetic diversity within the collection. A total of 409 polymorphic amplified fragments were obtained using the 16 SSR markers. The number of alleles per locus ranged from 11 to 47, with an average of 25.6. The average PIC value was 0.913, ranging from 0.855 to 0.964. Four hundred and nine SSR loci were used to calculate Jaccard’s distance coefficients, using the unweighted pair-group method with arithmetic mean cluster analysis. These accessions were separated into several distinctive groups corresponding to their morphology. The results provided valuable information for the colored rice breeding program and showed the importance of protecting germplasm resources and the molecular markers that can be derived from them.

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