Analysis of Population Structure and Genetic Diversity in Rice Germplasm Using SSR Markers: An Initiative Towards Association Mapping of Agronomic Traits in Oryza Sativa

[1]  K. Abendroth.  Molecular Marker Systems In Plant Breeding And Crop Improvement , 2016 .

[2]  R. Valarmathi,et al.  Unraveling the nutritional and therapeutic properties of ‘Kavuni’ a traditional rice variety of Tamil Nadu , 2015, Journal of Plant Biochemistry and Biotechnology.

[3]  Sudha Ramaiah,et al.  Study of chemical composition and volatile compounds along with in-vitro assay of antioxidant activity of two medicinal rice varieties: Karungkuravai and Mappilai samba , 2015, Journal of Food Science and Technology.

[4]  K. S. Subramanian,et al.  Genotypic Variation for Micronutrient Content in Traditional and Improved Rice Lines and its Role in Biofortification Programme , 2014 .

[5]  Koichiro Tamura,et al.  MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. , 2013, Molecular biology and evolution.

[6]  S. Dayanandan,et al.  Genetic structure and diversity of indigenous rice (Oryza sativa) varieties in the Eastern Himalayan region of Northeast India , 2013, SpringerPlus.

[7]  M. Laing,et al.  Genetic diversity, population structure and differentiation of rice species from Niger and their potential for rice genetic resources conservation and enhancement , 2013, Genetic Resources and Crop Evolution.

[8]  M. Prasad,et al.  Genetic diversity and population structure of rice landraces from Eastern and North Eastern States of India , 2013, BMC Genetics.

[9]  Kittipat Ukoskit,et al.  Genetic structure of Thai rice and rice accessions obtained from the International Rice Research Institute , 2012, Rice.

[10]  Rod Peakall,et al.  GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update , 2012, Bioinform..

[11]  Nourollah Ahmadi,et al.  Genetic Diversity and Population Structure in a European Collection of Rice , 2012 .

[12]  Theunis Piersma,et al.  The interplay between habitat availability and population differentiation , 2012 .

[13]  B. vonHoldt,et al.  STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method , 2012, Conservation Genetics Resources.

[14]  Xiangdong Liu,et al.  Population Structure and Genetic Diversity in a Rice Core Collection (Oryza sativa L.) Investigated with SSR Markers , 2011, PloS one.

[15]  Mark H. Wright,et al.  Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa , 2011, Nature communications.

[16]  M. Jia,et al.  A Rice Diversity Panel Evaluated for Genetic and Agro‐Morphological Diversity between Subpopulations and its Geographic Distribution , 2011 .

[17]  Hang He,et al.  Development and application of a set of breeder-friendly SNP markers for genetic analyses and molecular breeding of rice (Oryza sativa L.) , 2011, Theoretical and Applied Genetics.

[18]  C. Bustamante,et al.  Genomic Diversity and Introgression in O. sativa Reveal the Impact of Domestication and Breeding on the Rice Genome , 2010, PloS one.

[19]  M. Jia,et al.  Genetic structure associated with diversity and geographic distribution in the USDA rice world collection , 2010 .

[20]  H. Corke,et al.  Genetic diversity and population structure of a diverse set of rice germplasm for association mapping , 2010, Theoretical and Applied Genetics.

[21]  V. Thiruvengadam,et al.  Genetic diversity among cultivars, landraces and wild relatives of rice as revealed by microsatellite markers , 2010, Journal of Applied Genetics.

[22]  Xiangkun Wang,et al.  Genetic structure and differentiation of Oryza sativa L. in China revealed by microsatellites , 2009, Theoretical and Applied Genetics.

[23]  Zichao Li,et al.  Assessing indica-japonica differentiation of improved rice varieties using microsatellite markers. , 2009, Journal of genetics and genomics = Yi chuan xue bao.

[24]  Yoichiro Kojima,et al.  Development of mini core collection of Japanese rice landrace , 2008 .

[25]  I. Abdurakhmonov,et al.  Application of Association Mapping to Understanding the Genetic Diversity of Plant Germplasm Resources , 2008, International journal of plant genomics.

[26]  Vasudev Singh,et al.  Nutrient composition and physicochemical properties of Indian medicinal rice - Njavara , 2008 .

[27]  G. Eizenga,et al.  Molecular diversity and genome-wide linkage disequilibrium patterns in a worldwide collection of Oryza sativa and its wild relatives , 2008, Euphytica.

[28]  D. Brar,et al.  Assessment of Genetic Diversity of Philippine Rice Cultivars Carrying Good Quality Traits using SSR Markers , 2007 .

[29]  R. Varshney,et al.  Comparative assessment of EST-SSR, EST-SNP and AFLP markers for evaluation of genetic diversity and conservation of genetic resources using wild, cultivated and elite barleys , 2007 .

[30]  Ryan D. Hernandez,et al.  Genome-Wide Patterns of Nucleotide Polymorphism in Domesticated Rice , 2007, PLoS genetics.

[31]  Xiangkun Wang,et al.  Genetic structure and diversity of Oryza sativa L. in Guizhou, China , 2007 .

[32]  Laurent Excoffier,et al.  Arlequin (version 3.0): An integrated software package for population genetics data analysis , 2005, Evolutionary bioinformatics online.

[33]  G. Eizenga,et al.  Association mapping of yield and its components in rice cultivars , 2007, Molecular Breeding.

[34]  C. Yongsheng,et al.  Genetic diversity of rice cultivars ( Oryza sativa L.) in China and the temporal trends in recent fifty years , 2006 .

[35]  P. Smouse,et al.  genalex 6: genetic analysis in Excel. Population genetic software for teaching and research , 2006 .

[36]  M. Sorrells,et al.  Association Mapping of Kernel Size and Milling Quality in Wheat (Triticum aestivum L.) Cultivars , 2006, Genetics.

[37]  G. Evanno,et al.  Detecting the number of clusters of individuals using the software structure: a simulation study , 2005, Molecular ecology.

[38]  Kejun Liu,et al.  PowerMarker: an integrated analysis environment for genetic marker analysis , 2005, Bioinform..

[39]  Amanda J. Garris,et al.  Genetic Structure and Diversity in Oryza sativa L. , 2005, Genetics.

[40]  Chi Zhang,et al.  Microsatellite diversity within Oryza sativa with emphasis on indica-japonica divergence. , 2005, Genetical research.

[41]  H. Lörz,et al.  Molecular marker systems in plant breeding and crop improvement , 2005 .

[42]  Hong Lu,et al.  Population structure and breeding patterns of 145 U.S. rice cultivars based on SSR marker analysis , 2005 .

[43]  M. Blair,et al.  Microsatellite marker development, mapping and applications in rice genetics and breeding , 1997, Plant Molecular Biology.

[44]  Michele Morgante,et al.  The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis , 1996, Molecular Breeding.

[45]  H. Hattemer,et al.  Genetic distance between populations , 1982, Theoretical and Applied Genetics.

[46]  D. Mackill,et al.  Evaluation of Genetic Diversity in Rice Subspecies Using Microsatellite Markers , 2002 .

[47]  Edward S. Buckler,et al.  Dwarf8 polymorphisms associate with variation in flowering time , 2001, Nature Genetics.

[48]  P. Donnelly,et al.  Inference of population structure using multilocus genotype data. , 2000, Genetics.

[49]  B. Cobb,et al.  A simple procedure for optimising the polymerase chain reaction (PCR) using modified Taguchi methods. , 1994, Nucleic acids research.

[50]  G. Caetano-Anollés,et al.  DNA Amplification Fingerprinting Using Very Short Arbitrary Oligonucleotide Primers , 1991, Bio/Technology.

[51]  R. Jorgensen,et al.  Ribosomal DNA spacer-length polymorphisms in barley: mendelian inheritance, chromosomal location, and population dynamics. , 1984, Proceedings of the National Academy of Sciences of the United States of America.

[52]  D. Botstein,et al.  Construction of a genetic linkage map in man using restriction fragment length polymorphisms. , 1980, American journal of human genetics.

[53]  M. Nei.  Analysis of gene diversity in subdivided populations. , 1973, Proceedings of the National Academy of Sciences of the United States of America.