Large-scale, cost-effective screening of PCR products in marker-assisted selection applications View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

1995-08

AUTHORS

W. K. Gu, N. F. Weeden, J. Yu, D. H. Wallace

ABSTRACT

A simple, PCR-based method has been developed for the rapid genotyping of large numbers of samples. The method involves a alkaline extraction of DNA from plant tissue using a slight modification of the procedure of Wang et al. (Nucleic Acids Res 21:4153–4154, 1993). Template DNA is amplified using allelespecific associated primers (ASAPs) which, at stringent annealing temperatures, generate only a single DNA fragment and only in those individuals possessing the appropriate allele. This approach eliminates the need to separate amplified DNA fragments by electrophoresis. Instead, samples processing the appropriate allele are identified by direct staining of DNA with ethidium bromide. Total technician time required for extraction, amplification and detection of 96 samples is about 4 h, and this time requirement can be reduced by automation. Excluding labor, cost per sample is less than $0.40. The method is tested using the codominant isozyme marker, alcohol dehydrogenase (Adh-1) gene in pea (Pisum sativum), and applied to the screening of photoperiod genes in common bean (Phaseolus vulgaris L.). More... »

PAGES

465-470

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/bf00222974

DOI

http://dx.doi.org/10.1007/bf00222974

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1030982350

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/24169836


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/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "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"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Department of Horticultural Sciences, Cornell University, 14456, Geneva, NY, USA", 
          "id": "http://www.grid.ac/institutes/grid.5386.8", 
          "name": [
            "Department of Horticultural Sciences, Cornell University, 14456, Geneva, NY, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Gu", 
        "givenName": "W. K.", 
        "id": "sg:person.0647363126.73", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0647363126.73"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Horticultural Sciences, Cornell University, 14456, Geneva, NY, USA", 
          "id": "http://www.grid.ac/institutes/grid.5386.8", 
          "name": [
            "Department of Horticultural Sciences, Cornell University, 14456, Geneva, NY, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Weeden", 
        "givenName": "N. F.", 
        "id": "sg:person.0755307575.33", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0755307575.33"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Horticultural Sciences, Cornell University, 14456, Geneva, NY, USA", 
          "id": "http://www.grid.ac/institutes/grid.5386.8", 
          "name": [
            "Department of Horticultural Sciences, Cornell University, 14456, Geneva, NY, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Yu", 
        "givenName": "J.", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Plant Breeding, Cornell University, 14853, Ithaca, NY, USA", 
          "id": "http://www.grid.ac/institutes/grid.5386.8", 
          "name": [
            "Department of Plant Breeding, Cornell University, 14853, Ithaca, NY, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Wallace", 
        "givenName": "D. H.", 
        "id": "sg:person.0736333204.56", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0736333204.56"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "sg:pub.10.1007/bf00215038", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1041427615", 
          "https://doi.org/10.1007/bf00215038"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00223803", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028158370", 
          "https://doi.org/10.1007/bf00223803"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00215032", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1041104412", 
          "https://doi.org/10.1007/bf00215032"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00222658", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028807945", 
          "https://doi.org/10.1007/bf00222658"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00220815", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1020776326", 
          "https://doi.org/10.1007/bf00220815"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00211050", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1031603360", 
          "https://doi.org/10.1007/bf00211050"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "1995-08", 
    "datePublishedReg": "1995-08-01", 
    "description": "A simple, PCR-based method has been developed for the rapid genotyping of large numbers of samples. The method involves a alkaline extraction of DNA from plant tissue using a slight modification of the procedure of Wang et al. (Nucleic Acids Res 21:4153\u20134154, 1993). Template DNA is amplified using allelespecific associated primers (ASAPs) which, at stringent annealing temperatures, generate only a single DNA fragment and only in those individuals possessing the appropriate allele. This approach eliminates the need to separate amplified DNA fragments by electrophoresis. Instead, samples processing the appropriate allele are identified by direct staining of DNA with ethidium bromide. Total technician time required for extraction, amplification and detection of 96 samples is about 4 h, and this time requirement can be reduced by automation. Excluding labor, cost per sample is less than $0.40. The method is tested using the codominant isozyme marker, alcohol dehydrogenase (Adh-1) gene in pea (Pisum sativum), and applied to the screening of photoperiod genes in common bean (Phaseolus vulgaris L.).", 
    "genre": "article", 
    "id": "sg:pub.10.1007/bf00222974", 
    "inLanguage": "en", 
    "isAccessibleForFree": false, 
    "isPartOf": [
      {
        "id": "sg:journal.1135804", 
        "issn": [
          "0040-5752", 
          "1432-2242"
        ], 
        "name": "Theoretical and Applied Genetics", 
        "publisher": "Springer Nature", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "3", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "91"
      }
    ], 
    "keywords": [
      "marker-assisted selection applications", 
      "single DNA fragment", 
      "Amplified DNA fragments", 
      "annealing temperature", 
      "DNA fragments", 
      "alcohol dehydrogenase gene", 
      "template DNA", 
      "dehydrogenase gene", 
      "PCR products", 
      "cost-effective screening", 
      "rapid genotyping", 
      "direct staining", 
      "DNA", 
      "time requirements", 
      "selection applications", 
      "plant tissues", 
      "applications", 
      "detection", 
      "slight modification", 
      "primers", 
      "amplification", 
      "method", 
      "samples", 
      "ethidium bromide", 
      "screening", 
      "modification", 
      "requirements", 
      "large number", 
      "automation", 
      "alkaline extraction", 
      "Wang et al", 
      "bromide", 
      "technician time", 
      "cost", 
      "PCR", 
      "temperature", 
      "extraction", 
      "genes", 
      "fragments", 
      "electrophoresis", 
      "products", 
      "approach", 
      "time", 
      "tissue", 
      "al", 
      "need", 
      "procedure", 
      "number", 
      "staining", 
      "genotyping", 
      "pea", 
      "markers", 
      "et al", 
      "appropriate alleles", 
      "bean", 
      "isozyme markers", 
      "photoperiod genes", 
      "common bean", 
      "alleles", 
      "stringent annealing temperature", 
      "labor", 
      "individuals", 
      "Total technician time", 
      "codominant isozyme marker"
    ], 
    "name": "Large-scale, cost-effective screening of PCR products in marker-assisted selection applications", 
    "pagination": "465-470", 
    "productId": [
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1030982350"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/bf00222974"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "24169836"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1007/bf00222974", 
      "https://app.dimensions.ai/details/publication/pub.1030982350"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2021-11-01T18:01", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-springernature-scigraph/baseset/20211101/entities/gbq_results/article/article_270.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://doi.org/10.1007/bf00222974"
  }
]
 

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.10.1007/bf00222974'

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

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1007/bf00222974'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/bf00222974'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/bf00222974'


 

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

172 TRIPLES      22 PREDICATES      97 URIs      83 LITERALS      7 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/bf00222974 schema:about anzsrc-for:06
2 anzsrc-for:0604
3 schema:author N73124155c8f04f0393146bc71dd3023b
4 schema:citation sg:pub.10.1007/bf00211050
5 sg:pub.10.1007/bf00215032
6 sg:pub.10.1007/bf00215038
7 sg:pub.10.1007/bf00220815
8 sg:pub.10.1007/bf00222658
9 sg:pub.10.1007/bf00223803
10 schema:datePublished 1995-08
11 schema:datePublishedReg 1995-08-01
12 schema:description A simple, PCR-based method has been developed for the rapid genotyping of large numbers of samples. The method involves a alkaline extraction of DNA from plant tissue using a slight modification of the procedure of Wang et al. (Nucleic Acids Res 21:4153–4154, 1993). Template DNA is amplified using allelespecific associated primers (ASAPs) which, at stringent annealing temperatures, generate only a single DNA fragment and only in those individuals possessing the appropriate allele. This approach eliminates the need to separate amplified DNA fragments by electrophoresis. Instead, samples processing the appropriate allele are identified by direct staining of DNA with ethidium bromide. Total technician time required for extraction, amplification and detection of 96 samples is about 4 h, and this time requirement can be reduced by automation. Excluding labor, cost per sample is less than $0.40. The method is tested using the codominant isozyme marker, alcohol dehydrogenase (Adh-1) gene in pea (Pisum sativum), and applied to the screening of photoperiod genes in common bean (Phaseolus vulgaris L.).
13 schema:genre article
14 schema:inLanguage en
15 schema:isAccessibleForFree false
16 schema:isPartOf N957e5d8fd1724dacb405e54cb2f35ea2
17 Nfc956e07e28c41ffa510d7dc87a3523f
18 sg:journal.1135804
19 schema:keywords Amplified DNA fragments
20 DNA
21 DNA fragments
22 PCR
23 PCR products
24 Total technician time
25 Wang et al
26 al
27 alcohol dehydrogenase gene
28 alkaline extraction
29 alleles
30 amplification
31 annealing temperature
32 applications
33 approach
34 appropriate alleles
35 automation
36 bean
37 bromide
38 codominant isozyme marker
39 common bean
40 cost
41 cost-effective screening
42 dehydrogenase gene
43 detection
44 direct staining
45 electrophoresis
46 et al
47 ethidium bromide
48 extraction
49 fragments
50 genes
51 genotyping
52 individuals
53 isozyme markers
54 labor
55 large number
56 marker-assisted selection applications
57 markers
58 method
59 modification
60 need
61 number
62 pea
63 photoperiod genes
64 plant tissues
65 primers
66 procedure
67 products
68 rapid genotyping
69 requirements
70 samples
71 screening
72 selection applications
73 single DNA fragment
74 slight modification
75 staining
76 stringent annealing temperature
77 technician time
78 temperature
79 template DNA
80 time
81 time requirements
82 tissue
83 schema:name Large-scale, cost-effective screening of PCR products in marker-assisted selection applications
84 schema:pagination 465-470
85 schema:productId N3daf74da654242c49d09c8e33003f30a
86 N542063ed6b78494e96f3ff0bf89a4ad8
87 N708a8cb7c9cf4a7ea89f273758e1a7c4
88 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030982350
89 https://doi.org/10.1007/bf00222974
90 schema:sdDatePublished 2021-11-01T18:01
91 schema:sdLicense https://scigraph.springernature.com/explorer/license/
92 schema:sdPublisher N304ed57b888b4288a946bcb27ac42831
93 schema:url https://doi.org/10.1007/bf00222974
94 sgo:license sg:explorer/license/
95 sgo:sdDataset articles
96 rdf:type schema:ScholarlyArticle
97 N0fea37a0c10b46d5bf0fc2bfff900d6e rdf:first Nfb27edbbf5474f3e825e757ee3480008
98 rdf:rest N199374c3774d44eaa85872da52ae9b31
99 N199374c3774d44eaa85872da52ae9b31 rdf:first sg:person.0736333204.56
100 rdf:rest rdf:nil
101 N304ed57b888b4288a946bcb27ac42831 schema:name Springer Nature - SN SciGraph project
102 rdf:type schema:Organization
103 N3daf74da654242c49d09c8e33003f30a schema:name doi
104 schema:value 10.1007/bf00222974
105 rdf:type schema:PropertyValue
106 N542063ed6b78494e96f3ff0bf89a4ad8 schema:name pubmed_id
107 schema:value 24169836
108 rdf:type schema:PropertyValue
109 N708a8cb7c9cf4a7ea89f273758e1a7c4 schema:name dimensions_id
110 schema:value pub.1030982350
111 rdf:type schema:PropertyValue
112 N73124155c8f04f0393146bc71dd3023b rdf:first sg:person.0647363126.73
113 rdf:rest N8ff011a681854f8a9164468dd5f519c0
114 N8ff011a681854f8a9164468dd5f519c0 rdf:first sg:person.0755307575.33
115 rdf:rest N0fea37a0c10b46d5bf0fc2bfff900d6e
116 N957e5d8fd1724dacb405e54cb2f35ea2 schema:issueNumber 3
117 rdf:type schema:PublicationIssue
118 Nfb27edbbf5474f3e825e757ee3480008 schema:affiliation grid-institutes:grid.5386.8
119 schema:familyName Yu
120 schema:givenName J.
121 rdf:type schema:Person
122 Nfc956e07e28c41ffa510d7dc87a3523f schema:volumeNumber 91
123 rdf:type schema:PublicationVolume
124 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
125 schema:name Biological Sciences
126 rdf:type schema:DefinedTerm
127 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
128 schema:name Genetics
129 rdf:type schema:DefinedTerm
130 sg:journal.1135804 schema:issn 0040-5752
131 1432-2242
132 schema:name Theoretical and Applied Genetics
133 schema:publisher Springer Nature
134 rdf:type schema:Periodical
135 sg:person.0647363126.73 schema:affiliation grid-institutes:grid.5386.8
136 schema:familyName Gu
137 schema:givenName W. K.
138 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0647363126.73
139 rdf:type schema:Person
140 sg:person.0736333204.56 schema:affiliation grid-institutes:grid.5386.8
141 schema:familyName Wallace
142 schema:givenName D. H.
143 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0736333204.56
144 rdf:type schema:Person
145 sg:person.0755307575.33 schema:affiliation grid-institutes:grid.5386.8
146 schema:familyName Weeden
147 schema:givenName N. F.
148 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0755307575.33
149 rdf:type schema:Person
150 sg:pub.10.1007/bf00211050 schema:sameAs https://app.dimensions.ai/details/publication/pub.1031603360
151 https://doi.org/10.1007/bf00211050
152 rdf:type schema:CreativeWork
153 sg:pub.10.1007/bf00215032 schema:sameAs https://app.dimensions.ai/details/publication/pub.1041104412
154 https://doi.org/10.1007/bf00215032
155 rdf:type schema:CreativeWork
156 sg:pub.10.1007/bf00215038 schema:sameAs https://app.dimensions.ai/details/publication/pub.1041427615
157 https://doi.org/10.1007/bf00215038
158 rdf:type schema:CreativeWork
159 sg:pub.10.1007/bf00220815 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020776326
160 https://doi.org/10.1007/bf00220815
161 rdf:type schema:CreativeWork
162 sg:pub.10.1007/bf00222658 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028807945
163 https://doi.org/10.1007/bf00222658
164 rdf:type schema:CreativeWork
165 sg:pub.10.1007/bf00223803 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028158370
166 https://doi.org/10.1007/bf00223803
167 rdf:type schema:CreativeWork
168 grid-institutes:grid.5386.8 schema:alternateName Department of Horticultural Sciences, Cornell University, 14456, Geneva, NY, USA
169 Department of Plant Breeding, Cornell University, 14853, Ithaca, NY, USA
170 schema:name Department of Horticultural Sciences, Cornell University, 14456, Geneva, NY, USA
171 Department of Plant Breeding, Cornell University, 14853, Ithaca, NY, USA
172 rdf:type schema:Organization
 




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


...