Pathotype and Genetic Diversity amongst Indian Isolates of Xanthomonas oryzae pv. oryzae
Publication Date
November 29, 2013
Journal
PLOS ONE
Authors
Deo Mishra, Manne Ramachander Vishnupriya, Madhusoodana Girija Anil, Kotilingam Konda, et al
Volume
8
Issue
11
Pages
e81996
DOI
https://dx.plos.org/10.1371/journal.pone.0081996
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0081996
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/24312391
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3843720
Europe PMC
http://europepmc.org/abstract/MED/24312391
Web of Science
000327670300063
Scopus
84896711593
Mendeley
http://www.mendeley.com/research/pathotype-genetic-diversity-amongst-indian-isolates-xanthomonas-oryzae-pv-oryzae
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Mendeley | Further Information

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Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1299373"], "description"=>"<p>Genomic DNA was isolated from 52 <i>X. oryzae</i> pv. <i>oryzae</i> strains and southern analysis was performed using the IS<i>1112</i> probe as described in Methods. These 52 strains included 50 strains from eleven pathotypes identified in this study as well as <i>X. oryzae</i> pv. <i>oryzae</i> strains BXO1 and BXO8 from the study of Yashitola et al (13). Twenty different haplotypes were identified and at least one representative of each haplotype is shown. The IXO strain number is indicated on each lane along with pathotype. A one kb DNA ladder was added as a size marker. <i>X. oryzae</i> pv. <i>oryzae</i> strain BXO1 is loaded in the second lane of each blot for comparison. Each strain was analyzed at least three times, and 29 bands that were consistently visible in all the three replicates were used for scoring. </p>", "links"=>[], "tags"=>["polymorphism"], "article_id"=>865521, "categories"=>["Information And Computing Sciences", "Earth and Environmental Sciences", "Biological Sciences", "Ecology"], "users"=>["Deo Mishra", "Manne Ramachander Vishnupriya", "Madhusoodana Girija Anil", "Kotilingam Konda", "Yog Raj", "Ramesh V. Sonti"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0081996.g004", "stats"=>{"downloads"=>5, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Restriction_Fragment_Length_Polymorphism_analysis_of_X_oryzae_pv_oryzae_strains_/865521", "title"=>"Restriction Fragment Length Polymorphism analysis of <i>X. oryzae</i> pv. <i>oryzae</i> strains.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-11-29 03:21:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299374"], "description"=>"<p>A minimum spanning tree was drawn using the RFLP data. The digits in the edges represent percentage boot strap values obtained after 1000 iterations. A solid bold edge indicates a bootstrap value over 90%; solid line indicates a value over 70% and a dotted line indicates a value below 70%. </p>", "links"=>[], "tags"=>["relationships", "strains", "spanning"], "article_id"=>865522, "categories"=>["Information And Computing Sciences", "Earth and Environmental Sciences", "Biological Sciences", "Ecology"], "users"=>["Deo Mishra", "Manne Ramachander Vishnupriya", "Madhusoodana Girija Anil", "Kotilingam Konda", "Yog Raj", "Ramesh V. Sonti"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0081996.g005", "stats"=>{"downloads"=>4, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Phylogenetic_relationships_of_X_oryzae_pv_oryzae_strains_analyzed_using_a_Minimum_spanning_tree_/865522", "title"=>"Phylogenetic relationships of <i>X. oryzae</i> pv. <i>oryzae</i> strains analyzed using a Minimum spanning tree.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-11-29 03:21:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299377", "https://ndownloader.figshare.com/files/1299378"], "description"=>"<div><p>A number of rice resistance genes, called <i>Xa</i> genes, have been identified that confer resistance against various strains of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> (Xoo), the causal agent of bacterial blight. An understanding of pathotype diversity within the target pathogen population is required for identifying the <i>Xa</i> genes that are to be deployed for development of resistant rice cultivars. Among 1024 isolates of Xoo collected from 20 different states of India, 11 major pathotypes were distinguished based on their reaction towards ten <i>Xa</i> genes (<i>Xa1</i>, <i>Xa3</i>, <i>Xa4</i>, <i>xa5</i>, <i>Xa7</i>, <i>xa8</i>, <i>Xa10</i>, <i>Xa11</i>, <i>xa13</i>, <i>Xa21</i>). Isolates belonging to pathotype III showing incompatible interaction towards <i>xa8</i>, <i>xa13</i> and <i>Xa21</i> and compatible interaction towards the rest of <i>Xa</i> genes formed the most frequent (41%) and widely distributed pathotype. The vast majority of the assayed Xoo isolates were incompatible with one or more <i>Xa</i> genes. Exceptionally, the isolates of pathotype XI were virulent on all <i>Xa</i> genes, but have restricted distribution. Considering the individual R-genes, <i>Xa21</i> appeared as the most broadly effective, conferring resistance against 88 % of the isolates, followed in decreasing order by <i>xa13</i> (84 %), <i>xa8</i> (64 %), <i>xa5</i> (30 %), <i>Xa7</i> (17 %) and <i>Xa4</i> (14 %). Fifty isolates representing all the eleven pathotypes were analyzed by southern hybridization to determine their genetic relatedness using the IS<i>1112</i> repeat element of Xoo. Isolates belonging to pathotype XI were the most divergent. The results suggest that one RFLP haplotype that is widely distributed all over India and is represented in strains from five different pathotypes might be an ancestral haplotype. A rice line with <i>xa5, xa13</i> and <i>Xa21</i> resistance genes is resistant to all strains, including those belonging to pathotype XI. This three gene combination appears to be the most suitable <i>Xa</i> gene combination to be deployed in Indian rice cultivars.</p> </div>", "links"=>[], "tags"=>["pathotype", "amongst", "indian", "isolates"], "article_id"=>865525, "categories"=>["Information And Computing Sciences", "Earth and Environmental Sciences", "Biological Sciences", "Ecology"], "users"=>["Deo Mishra", "Manne Ramachander Vishnupriya", "Madhusoodana Girija Anil", "Kotilingam Konda", "Yog Raj", "Ramesh V. Sonti"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0081996.s001", "https://dx.doi.org/10.1371/journal.pone.0081996.s002"], "stats"=>{"downloads"=>3, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Pathotype_and_Genetic_Diversity_amongst_Indian_Isolates_of_Xanthomonas_oryzae_pv_oryzae_/865525", "title"=>"Pathotype and Genetic Diversity amongst Indian Isolates of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i>", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2013-11-29 03:21:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299368"], "description"=>"<p><i>X. oryzae</i> pv. <i>oryzae</i> strains were collected from different states in India. The numbers in parentheses indicate the number of strains isolated from each state. Overall, the states from which more isolates were collected are those that have been more extensively surveyed.</p>", "links"=>[], "tags"=>["strains"], "article_id"=>865516, "categories"=>["Information And Computing Sciences", "Earth and Environmental Sciences", "Biological Sciences", "Ecology"], "users"=>["Deo Mishra", "Manne Ramachander Vishnupriya", "Madhusoodana Girija Anil", "Kotilingam Konda", "Yog Raj", "Ramesh V. Sonti"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0081996.g001", "stats"=>{"downloads"=>0, "page_views"=>27, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Statewise_distribution_of_X_oryzae_pv_oryzae_strains_collected_from_India_/865516", "title"=>"Statewise distribution of <i>X. oryzae</i> pv. <i>oryzae</i> strains collected from India.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-11-29 03:21:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299369"], "description"=>"<p>Eleven different pathotypes, designated as I to XI, were identified in this study. The x-axis indicates pathotype and the y-axis indicates % frequency amongst the 1024 isolates that were collected and analyzed.</p>", "links"=>[], "tags"=>["pathotypes"], "article_id"=>865517, "categories"=>["Information And Computing Sciences", "Earth and Environmental Sciences", "Biological Sciences", "Ecology"], "users"=>["Deo Mishra", "Manne Ramachander Vishnupriya", "Madhusoodana Girija Anil", "Kotilingam Konda", "Yog Raj", "Ramesh V. Sonti"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0081996.g002", "stats"=>{"downloads"=>3, "page_views"=>19, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Frequency_of_X_oryzae_pv_oryzae_pathotypes_in_India_/865517", "title"=>"Frequency of <i>X. oryzae</i> pv. <i>oryzae</i> pathotypes in India.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-11-29 03:21:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299370"], "description"=>"<p>The x-axis indicates resistance gene and the y-axis indicates the frequency of isolates against which this gene confers resistance. Inoculation of rice leaves with isolates was done as described in Methods and lesion lengths were measured 14 days after inoculation. Lesion lengths <5 cm are considered as resistant, 5 to 10 cm are considered as moderately resistant and >10 cm are considered as susceptible. </p>", "links"=>[], "tags"=>["xa", "genes", "indian"], "article_id"=>865518, "categories"=>["Information And Computing Sciences", "Earth and Environmental Sciences", "Biological Sciences", "Ecology"], "users"=>["Deo Mishra", "Manne Ramachander Vishnupriya", "Madhusoodana Girija Anil", "Kotilingam Konda", "Yog Raj", "Ramesh V. Sonti"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0081996.g003", "stats"=>{"downloads"=>1, "page_views"=>26, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Effectiveness_of_Xa_genes_against_Indian_X_oryzae_pv_oryzae_isolates_/865518", "title"=>"Effectiveness of Xa genes against Indian <i>X. oryzae</i> pv. <i>oryzae</i> isolates.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-11-29 03:21:10"}

PMC Usage Stats | Further Information

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  • {"unique-ip"=>"7", "full-text"=>"6", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2014", "month"=>"9"}
  • {"unique-ip"=>"10", "full-text"=>"6", "pdf"=>"7", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2014", "month"=>"10"}
  • {"unique-ip"=>"9", "full-text"=>"10", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"5", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"2"}
  • {"unique-ip"=>"21", "full-text"=>"12", "pdf"=>"10", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2014", "month"=>"11"}
  • {"unique-ip"=>"16", "full-text"=>"5", "pdf"=>"10", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2014", "month"=>"12"}
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  • {"unique-ip"=>"9", "full-text"=>"10", "pdf"=>"8", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"6"}
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  • {"unique-ip"=>"15", "full-text"=>"15", "pdf"=>"6", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"5", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"9"}
  • {"unique-ip"=>"9", "full-text"=>"11", "pdf"=>"5", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"10"}
  • {"unique-ip"=>"9", "full-text"=>"8", "pdf"=>"9", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"11"}
  • {"unique-ip"=>"9", "full-text"=>"8", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2016", "month"=>"12"}
  • {"unique-ip"=>"9", "full-text"=>"5", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"1"}
  • {"unique-ip"=>"8", "full-text"=>"7", "pdf"=>"5", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"2"}
  • {"unique-ip"=>"5", "full-text"=>"5", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2017", "month"=>"3"}
  • {"unique-ip"=>"8", "full-text"=>"7", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"4"}
  • {"unique-ip"=>"13", "full-text"=>"13", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"5"}
  • {"unique-ip"=>"5", "full-text"=>"4", "pdf"=>"4", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"6"}
  • {"unique-ip"=>"9", "full-text"=>"10", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"7"}
  • {"unique-ip"=>"3", "full-text"=>"3", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"8"}
  • {"unique-ip"=>"8", "full-text"=>"9", "pdf"=>"4", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"9"}
  • {"unique-ip"=>"6", "full-text"=>"4", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"10"}
  • {"unique-ip"=>"9", "full-text"=>"10", "pdf"=>"2", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2017", "month"=>"11"}
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  • {"unique-ip"=>"8", "full-text"=>"10", "pdf"=>"3", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"1"}
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  • {"unique-ip"=>"2", "full-text"=>"1", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"4"}
  • {"unique-ip"=>"13", "full-text"=>"9", "pdf"=>"4", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"6", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"5"}
  • {"unique-ip"=>"6", "full-text"=>"5", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"6"}
  • {"unique-ip"=>"11", "full-text"=>"9", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2018", "month"=>"7"}
  • {"unique-ip"=>"8", "full-text"=>"9", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"8"}
  • {"unique-ip"=>"3", "full-text"=>"3", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"10"}
  • {"unique-ip"=>"6", "full-text"=>"6", "pdf"=>"5", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"9"}
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  • {"unique-ip"=>"14", "full-text"=>"16", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"11"}
  • {"unique-ip"=>"7", "full-text"=>"8", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"2"}
  • {"unique-ip"=>"6", "full-text"=>"6", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"3"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"4"}

Relative Metric

{"start_date"=>"2013-01-01T00:00:00Z", "end_date"=>"2013-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences", "average_usage"=>[269, 466, 588, 697, 800, 896, 988, 1076, 1165, 1254, 1340, 1417]}, {"subject_area"=>"/Biology and life sciences/Agriculture", "average_usage"=>[241, 422, 551, 659, 765, 866, 954, 1043, 1142, 1235, 1311, 1397, 1462]}, {"subject_area"=>"/Biology and life sciences/Genetics", "average_usage"=>[284, 491, 620, 738, 843, 945, 1043, 1137, 1225, 1315, 1400, 1479, 1555]}, {"subject_area"=>"/Biology and life sciences/Molecular biology", "average_usage"=>[272, 466, 589, 702, 806, 903, 995, 1086, 1176, 1258, 1347, 1422, 1493]}, {"subject_area"=>"/Biology and life sciences/Organisms", "average_usage"=>[281, 484, 611, 728, 835, 934, 1030, 1123, 1214, 1299, 1383, 1464]}, {"subject_area"=>"/Biology and life sciences/Population biology", "average_usage"=>[269, 448, 558, 658, 744, 830, 914, 995, 1068, 1139, 1214, 1284, 1349]}, {"subject_area"=>"/Computer and information sciences/Computer software", "average_usage"=>[275, 441, 557, 690, 806, 929, 1029, 1117, 1218, 1286, 1349, 1438, 1506]}, {"subject_area"=>"/Medicine and health sciences/Pathology and laboratory medicine", "average_usage"=>[267, 466, 592, 709, 806, 901, 989, 1075, 1162, 1254, 1342, 1424, 1486]}, {"subject_area"=>"/People and places", "average_usage"=>[270, 456, 573, 676, 773, 867, 955, 1037, 1120, 1205, 1286, 1363, 1436]}, {"subject_area"=>"/People and places/Geographical locations", "average_usage"=>[263, 456, 571, 673, 776, 866, 955, 1040, 1132, 1217, 1310, 1391, 1454]}]}
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