Identification and classification of aromatic rices based on DNA fingerprinting View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2001-04

AUTHORS

P. Ray Choudhury, S. Kohli, K. Srinivasan, T. Mohapatra, R.P. Sharma

ABSTRACT

Aromatic rices are preferred by the consumers all over the world due to its flavour and palatability. Although a large number of these collections are available, little systematic analysis of genetic diversity has been carried out. With the objective of identification and classification of aromatic rice genotypes, RAPD profiling was employed using 58 random decamer primers. Most of these primers (96.5%) detected polymorphism among the genotypes. Of the 465 amplified bands, 314 were polymorphic. Cluster analysis based on Jaccard's similarity coefficient using UPGMA grouped all the traditional tall, photosensitive, low yielding, long grained ‘basmati’ aromatics together. The short grained aromatic cultivars, formed a different cluster with high level of average similarity among themselves. The dendrogram based on 58 primers was highly similar to that based on 10 and 15 primers with matrix correlation (r) of 0.88 and 0.91, respectively. This suggested that a set of 10 primers can be employed for an initial assessment of genetic diversity in a large number of collections. All the rice genotypes included in the study could be distinguished from each other at the level of 19 to 186 polymorphic bands between individuals in pair wise comparison over all the 58 primers. Probability of identical profiles by chance suggested that about 1041 genotypes can be unambiguously differentiated by RAPD fingerprints obtained by 58 primers. A diagrammatic mode of presentation of DNA fingerprints of the aromatic rices based on 10 of the informative primers was developed. More... »

PAGES

243-251

Journal

TITLE

Euphytica

ISSUE

3

VOLUME

118

Identifiers

URI

http://scigraph.springernature.com/pub.10.1023/a:1017554600145

DOI

http://dx.doi.org/10.1023/a:1017554600145

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1020514884


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

JSON-LD is the canonical representation for SciGraph data.

TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

[
  {
    "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
    "about": [
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0604", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Genetics", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Indian Agricultural Research Institute", 
          "id": "https://www.grid.ac/institutes/grid.418196.3", 
          "name": [
            "Indian Agricultural Research Institute, National Research Centre on Plant Biotechnology, 110 012, New Delhi, India"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Choudhury", 
        "givenName": "P. Ray", 
        "id": "sg:person.0770342006.30", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0770342006.30"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Indian Agricultural Research Institute", 
          "id": "https://www.grid.ac/institutes/grid.418196.3", 
          "name": [
            "Indian Agricultural Research Institute, National Research Centre on Plant Biotechnology, 110 012, New Delhi, India"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Kohli", 
        "givenName": "S.", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Indian Agricultural Research Institute", 
          "id": "https://www.grid.ac/institutes/grid.418196.3", 
          "name": [
            "Indian Agricultural Research Institute, National Research Centre on Plant Biotechnology, 110 012, New Delhi, India"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Srinivasan", 
        "givenName": "K.", 
        "id": "sg:person.010030753307.77", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010030753307.77"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Indian Agricultural Research Institute", 
          "id": "https://www.grid.ac/institutes/grid.418196.3", 
          "name": [
            "Indian Agricultural Research Institute, National Research Centre on Plant Biotechnology, 110 012, New Delhi, India"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Mohapatra", 
        "givenName": "T.", 
        "id": "sg:person.01115266135.20", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01115266135.20"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Indian Agricultural Research Institute", 
          "id": "https://www.grid.ac/institutes/grid.418196.3", 
          "name": [
            "Indian Agricultural Research Institute, National Research Centre on Plant Biotechnology, 110 012, New Delhi, India"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Sharma", 
        "givenName": "R.P.", 
        "id": "sg:person.0641247040.53", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0641247040.53"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "sg:pub.10.1007/bf00222920", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1015166577", 
          "https://doi.org/10.1007/bf00222920"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1071/ea9950807", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1022229794"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/18.22.6531", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1022940325"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/hdy.1995.25", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027861453", 
          "https://doi.org/10.1038/hdy.1995.25"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/hdy.1995.25", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027861453", 
          "https://doi.org/10.1038/hdy.1995.25"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00223651", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037760198", 
          "https://doi.org/10.1007/bf00223651"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/hdy.1996.43", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1038566554", 
          "https://doi.org/10.1038/hdy.1996.43"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/hdy.1996.43", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1038566554", 
          "https://doi.org/10.1038/hdy.1996.43"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00222891", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1038760971", 
          "https://doi.org/10.1007/bf00222891"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1266/jjg.67.243", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1045521213"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1266/jjg.67.243", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1045521213"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.2135/cropsci1995.0011183x003500030043x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1069024649"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.2135/cropsci1997.0011183x003700050037x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1069025680"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2001-04", 
    "datePublishedReg": "2001-04-01", 
    "description": "Aromatic rices are preferred by the consumers all over the world due to its flavour and palatability. Although a large number of these collections are available, little systematic analysis of genetic diversity has been carried out. With the objective of identification and classification of aromatic rice genotypes, RAPD profiling was employed using 58 random decamer primers. Most of these primers (96.5%) detected polymorphism among the genotypes. Of the 465 amplified bands, 314 were polymorphic. Cluster analysis based on Jaccard's similarity coefficient using UPGMA grouped all the traditional tall, photosensitive, low yielding, long grained \u2018basmati\u2019 aromatics together. The short grained aromatic cultivars, formed a different cluster with high level of average similarity among themselves. The dendrogram based on 58 primers was highly similar to that based on 10 and 15 primers with matrix correlation (r) of 0.88 and 0.91, respectively. This suggested that a set of 10 primers can be employed for an initial assessment of genetic diversity in a large number of collections. All the rice genotypes included in the study could be distinguished from each other at the level of 19 to 186 polymorphic bands between individuals in pair wise comparison over all the 58 primers. Probability of identical profiles by chance suggested that about 1041 genotypes can be unambiguously differentiated by RAPD fingerprints obtained by 58 primers. A diagrammatic mode of presentation of DNA fingerprints of the aromatic rices based on 10 of the informative primers was developed.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1023/a:1017554600145", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isPartOf": [
      {
        "id": "sg:journal.1028679", 
        "issn": [
          "0014-2336", 
          "1573-5060"
        ], 
        "name": "Euphytica", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "3", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "118"
      }
    ], 
    "name": "Identification and classification of aromatic rices based on DNA fingerprinting", 
    "pagination": "243-251", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "61bfefeb0a93cbf5735a16eda06d577ae78c757915c6a437cc4b9d75970fe7ae"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1023/a:1017554600145"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1020514884"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1023/a:1017554600145", 
      "https://app.dimensions.ai/details/publication/pub.1020514884"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-10T14:59", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000001_0000000264/records_8663_00000505.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "http://link.springer.com/10.1023/A:1017554600145"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1023/a:1017554600145'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1023/a:1017554600145'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1023/a:1017554600145'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1023/a:1017554600145'


 

This table displays all metadata directly associated to this object as RDF triples.

123 TRIPLES      21 PREDICATES      37 URIs      19 LITERALS      7 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1023/a:1017554600145 schema:about anzsrc-for:06
2 anzsrc-for:0604
3 schema:author Na3964ca65f64459f889b1538134ee0db
4 schema:citation sg:pub.10.1007/bf00222891
5 sg:pub.10.1007/bf00222920
6 sg:pub.10.1007/bf00223651
7 sg:pub.10.1038/hdy.1995.25
8 sg:pub.10.1038/hdy.1996.43
9 https://doi.org/10.1071/ea9950807
10 https://doi.org/10.1093/nar/18.22.6531
11 https://doi.org/10.1266/jjg.67.243
12 https://doi.org/10.2135/cropsci1995.0011183x003500030043x
13 https://doi.org/10.2135/cropsci1997.0011183x003700050037x
14 schema:datePublished 2001-04
15 schema:datePublishedReg 2001-04-01
16 schema:description Aromatic rices are preferred by the consumers all over the world due to its flavour and palatability. Although a large number of these collections are available, little systematic analysis of genetic diversity has been carried out. With the objective of identification and classification of aromatic rice genotypes, RAPD profiling was employed using 58 random decamer primers. Most of these primers (96.5%) detected polymorphism among the genotypes. Of the 465 amplified bands, 314 were polymorphic. Cluster analysis based on Jaccard's similarity coefficient using UPGMA grouped all the traditional tall, photosensitive, low yielding, long grained ‘basmati’ aromatics together. The short grained aromatic cultivars, formed a different cluster with high level of average similarity among themselves. The dendrogram based on 58 primers was highly similar to that based on 10 and 15 primers with matrix correlation (r) of 0.88 and 0.91, respectively. This suggested that a set of 10 primers can be employed for an initial assessment of genetic diversity in a large number of collections. All the rice genotypes included in the study could be distinguished from each other at the level of 19 to 186 polymorphic bands between individuals in pair wise comparison over all the 58 primers. Probability of identical profiles by chance suggested that about 1041 genotypes can be unambiguously differentiated by RAPD fingerprints obtained by 58 primers. A diagrammatic mode of presentation of DNA fingerprints of the aromatic rices based on 10 of the informative primers was developed.
17 schema:genre research_article
18 schema:inLanguage en
19 schema:isAccessibleForFree false
20 schema:isPartOf N61dfa94bdd6c4bd0834d0097c7ba044f
21 Ne6d9a85b29d74a0ba2383118a3c64182
22 sg:journal.1028679
23 schema:name Identification and classification of aromatic rices based on DNA fingerprinting
24 schema:pagination 243-251
25 schema:productId N1ee09576382c4590abb78ad048fa8361
26 N2d5343a673c9499d8357057c16305431
27 Nfec0e069c87d4dc6b92526fa7c4007ef
28 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020514884
29 https://doi.org/10.1023/a:1017554600145
30 schema:sdDatePublished 2019-04-10T14:59
31 schema:sdLicense https://scigraph.springernature.com/explorer/license/
32 schema:sdPublisher N0578c77a38484d248cbd23979a16237f
33 schema:url http://link.springer.com/10.1023/A:1017554600145
34 sgo:license sg:explorer/license/
35 sgo:sdDataset articles
36 rdf:type schema:ScholarlyArticle
37 N0578c77a38484d248cbd23979a16237f schema:name Springer Nature - SN SciGraph project
38 rdf:type schema:Organization
39 N1ee09576382c4590abb78ad048fa8361 schema:name dimensions_id
40 schema:value pub.1020514884
41 rdf:type schema:PropertyValue
42 N2d5343a673c9499d8357057c16305431 schema:name readcube_id
43 schema:value 61bfefeb0a93cbf5735a16eda06d577ae78c757915c6a437cc4b9d75970fe7ae
44 rdf:type schema:PropertyValue
45 N56529ff431b4438c8d285405435e2af4 rdf:first N8990cfed5be54269ae347cd23c3c38c5
46 rdf:rest N715392d89c86439e982724a2a5c13c41
47 N61dfa94bdd6c4bd0834d0097c7ba044f schema:issueNumber 3
48 rdf:type schema:PublicationIssue
49 N715392d89c86439e982724a2a5c13c41 rdf:first sg:person.010030753307.77
50 rdf:rest Nbfa6ec9089cf4bab8da25c5ae6599e4c
51 N8990cfed5be54269ae347cd23c3c38c5 schema:affiliation https://www.grid.ac/institutes/grid.418196.3
52 schema:familyName Kohli
53 schema:givenName S.
54 rdf:type schema:Person
55 Na3964ca65f64459f889b1538134ee0db rdf:first sg:person.0770342006.30
56 rdf:rest N56529ff431b4438c8d285405435e2af4
57 Nbfa6ec9089cf4bab8da25c5ae6599e4c rdf:first sg:person.01115266135.20
58 rdf:rest Nfd87c207183343899cbad9362fc1f013
59 Ne6d9a85b29d74a0ba2383118a3c64182 schema:volumeNumber 118
60 rdf:type schema:PublicationVolume
61 Nfd87c207183343899cbad9362fc1f013 rdf:first sg:person.0641247040.53
62 rdf:rest rdf:nil
63 Nfec0e069c87d4dc6b92526fa7c4007ef schema:name doi
64 schema:value 10.1023/a:1017554600145
65 rdf:type schema:PropertyValue
66 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
67 schema:name Biological Sciences
68 rdf:type schema:DefinedTerm
69 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
70 schema:name Genetics
71 rdf:type schema:DefinedTerm
72 sg:journal.1028679 schema:issn 0014-2336
73 1573-5060
74 schema:name Euphytica
75 rdf:type schema:Periodical
76 sg:person.010030753307.77 schema:affiliation https://www.grid.ac/institutes/grid.418196.3
77 schema:familyName Srinivasan
78 schema:givenName K.
79 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010030753307.77
80 rdf:type schema:Person
81 sg:person.01115266135.20 schema:affiliation https://www.grid.ac/institutes/grid.418196.3
82 schema:familyName Mohapatra
83 schema:givenName T.
84 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01115266135.20
85 rdf:type schema:Person
86 sg:person.0641247040.53 schema:affiliation https://www.grid.ac/institutes/grid.418196.3
87 schema:familyName Sharma
88 schema:givenName R.P.
89 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0641247040.53
90 rdf:type schema:Person
91 sg:person.0770342006.30 schema:affiliation https://www.grid.ac/institutes/grid.418196.3
92 schema:familyName Choudhury
93 schema:givenName P. Ray
94 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0770342006.30
95 rdf:type schema:Person
96 sg:pub.10.1007/bf00222891 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038760971
97 https://doi.org/10.1007/bf00222891
98 rdf:type schema:CreativeWork
99 sg:pub.10.1007/bf00222920 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015166577
100 https://doi.org/10.1007/bf00222920
101 rdf:type schema:CreativeWork
102 sg:pub.10.1007/bf00223651 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037760198
103 https://doi.org/10.1007/bf00223651
104 rdf:type schema:CreativeWork
105 sg:pub.10.1038/hdy.1995.25 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027861453
106 https://doi.org/10.1038/hdy.1995.25
107 rdf:type schema:CreativeWork
108 sg:pub.10.1038/hdy.1996.43 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038566554
109 https://doi.org/10.1038/hdy.1996.43
110 rdf:type schema:CreativeWork
111 https://doi.org/10.1071/ea9950807 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022229794
112 rdf:type schema:CreativeWork
113 https://doi.org/10.1093/nar/18.22.6531 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022940325
114 rdf:type schema:CreativeWork
115 https://doi.org/10.1266/jjg.67.243 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045521213
116 rdf:type schema:CreativeWork
117 https://doi.org/10.2135/cropsci1995.0011183x003500030043x schema:sameAs https://app.dimensions.ai/details/publication/pub.1069024649
118 rdf:type schema:CreativeWork
119 https://doi.org/10.2135/cropsci1997.0011183x003700050037x schema:sameAs https://app.dimensions.ai/details/publication/pub.1069025680
120 rdf:type schema:CreativeWork
121 https://www.grid.ac/institutes/grid.418196.3 schema:alternateName Indian Agricultural Research Institute
122 schema:name Indian Agricultural Research Institute, National Research Centre on Plant Biotechnology, 110 012, New Delhi, India
123 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...