Comparison of seven DNA extraction and amplification protocols in historical herbarium specimens of juncaceae View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2002-06

AUTHORS

Lenka Drábková, Jan Kirschner, Ĉestmír Vlĉek

ABSTRACT

Seven DNA extraction protocols were used to obtain DNA from herbarium specimens ofJuncus andLuzula (Juncaceae) of various ages. DNA of historical samples is difficult to extract, and the extracts are seldom of good quality. The quality of DNA obtained was estimated by using a spectrophotometer to measure the A260/280 absorbance ratio. The total DNA yield was measured by a fluorometer. The results indicate the success of using both mixer mill grinding and a DNeasy Plant Kit. Another extraction protocol (grinding with mortar and pestle, using liquid nitrogen) yielded DNA from many samples. Modified CTAB extraction, with a lengthy precipitation, usually provided good amounts of DNA. Other protocols did not give satisfactory results. More... »

PAGES

161-175

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/bf02799431

DOI

http://dx.doi.org/10.1007/bf02799431

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1022200420


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": "Institute of Botany", 
          "id": "https://www.grid.ac/institutes/grid.424923.a", 
          "name": [
            "Institute of Botany, Academy of Sciences, Z\u00e1mek 1, 252 43, Pr\u016fhonice, Czech Republic"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Dr\u00e1bkov\u00e1", 
        "givenName": "Lenka", 
        "id": "sg:person.01343264514.15", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01343264514.15"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Institute of Botany", 
          "id": "https://www.grid.ac/institutes/grid.424923.a", 
          "name": [
            "Institute of Botany, Academy of Sciences, Z\u00e1mek 1, 252 43, Pr\u016fhonice, Czech Republic"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Kirschner", 
        "givenName": "Jan", 
        "id": "sg:person.011105232722.92", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011105232722.92"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Academy of Sciences of the Czech Republic", 
          "id": "https://www.grid.ac/institutes/grid.418095.1", 
          "name": [
            "Centre for Integrated Genomics and Institute of Molecular Genetics, Academy of Sciences, Flemingovo n\u00e1m. 2, 166 37, Prague 6, Czech Republic"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Vl\u0109ek", 
        "givenName": "\u0108estm\u00edr", 
        "id": "sg:person.0737354613.59", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0737354613.59"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "sg:pub.10.1007/978-94-009-0019-6_7", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001466908", 
          "https://doi.org/10.1007/978-94-009-0019-6_7"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1023/a:1007428009556", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1002741691", 
          "https://doi.org/10.1023/a:1007428009556"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/978-1-4612-4318-2_11", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1003209859", 
          "https://doi.org/10.1007/978-1-4612-4318-2_11"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00037152", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1004569744", 
          "https://doi.org/10.1007/bf00037152"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00037152", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1004569744", 
          "https://doi.org/10.1007/bf00037152"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/35079606", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1013671979", 
          "https://doi.org/10.1038/35079606"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/35079606", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1013671979", 
          "https://doi.org/10.1038/35079606"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/22.18.3801", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016775729"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1046/j.1365-294x.1999.00807.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1039733971"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00020088", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1047432473", 
          "https://doi.org/10.1007/bf00020088"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00020088", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1047432473", 
          "https://doi.org/10.1007/bf00020088"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.2307/1220085", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1069400578"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.2307/1221732", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1069401859"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.2307/1222203", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1069402239"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.2307/1223934", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1069403689"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2002-06", 
    "datePublishedReg": "2002-06-01", 
    "description": "Seven DNA extraction protocols were used to obtain DNA from herbarium specimens ofJuncus andLuzula (Juncaceae) of various ages. DNA of historical samples is difficult to extract, and the extracts are seldom of good quality. The quality of DNA obtained was estimated by using a spectrophotometer to measure the A260/280 absorbance ratio. The total DNA yield was measured by a fluorometer. The results indicate the success of using both mixer mill grinding and a DNeasy Plant Kit. Another extraction protocol (grinding with mortar and pestle, using liquid nitrogen) yielded DNA from many samples. Modified CTAB extraction, with a lengthy precipitation, usually provided good amounts of DNA. Other protocols did not give satisfactory results.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1007/bf02799431", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isPartOf": [
      {
        "id": "sg:journal.1124107", 
        "issn": [
          "0735-9640", 
          "1556-469X"
        ], 
        "name": "Plant Molecular Biology Reporter", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "2", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "20"
      }
    ], 
    "name": "Comparison of seven DNA extraction and amplification protocols in historical herbarium specimens of juncaceae", 
    "pagination": "161-175", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "69c4dfc3d53b9412d0bb3eaf2618a7d75ff68192035a28853bab2aafa1fcc521"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/bf02799431"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1022200420"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1007/bf02799431", 
      "https://app.dimensions.ai/details/publication/pub.1022200420"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-11T01:05", 
    "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_8697_00000505.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "http://link.springer.com/10.1007%2FBF02799431"
  }
]
 

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/bf02799431'

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/bf02799431'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/bf02799431'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/bf02799431'


 

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

120 TRIPLES      21 PREDICATES      39 URIs      19 LITERALS      7 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/bf02799431 schema:about anzsrc-for:06
2 anzsrc-for:0604
3 schema:author N2f97e52407a74d8c94df0b10e321c801
4 schema:citation sg:pub.10.1007/978-1-4612-4318-2_11
5 sg:pub.10.1007/978-94-009-0019-6_7
6 sg:pub.10.1007/bf00020088
7 sg:pub.10.1007/bf00037152
8 sg:pub.10.1023/a:1007428009556
9 sg:pub.10.1038/35079606
10 https://doi.org/10.1046/j.1365-294x.1999.00807.x
11 https://doi.org/10.1093/nar/22.18.3801
12 https://doi.org/10.2307/1220085
13 https://doi.org/10.2307/1221732
14 https://doi.org/10.2307/1222203
15 https://doi.org/10.2307/1223934
16 schema:datePublished 2002-06
17 schema:datePublishedReg 2002-06-01
18 schema:description Seven DNA extraction protocols were used to obtain DNA from herbarium specimens ofJuncus andLuzula (Juncaceae) of various ages. DNA of historical samples is difficult to extract, and the extracts are seldom of good quality. The quality of DNA obtained was estimated by using a spectrophotometer to measure the A260/280 absorbance ratio. The total DNA yield was measured by a fluorometer. The results indicate the success of using both mixer mill grinding and a DNeasy Plant Kit. Another extraction protocol (grinding with mortar and pestle, using liquid nitrogen) yielded DNA from many samples. Modified CTAB extraction, with a lengthy precipitation, usually provided good amounts of DNA. Other protocols did not give satisfactory results.
19 schema:genre research_article
20 schema:inLanguage en
21 schema:isAccessibleForFree false
22 schema:isPartOf Naccdd923e9b74df38f296ad70692b132
23 Nc62184b6a6744036a2c81aea44ca2eaf
24 sg:journal.1124107
25 schema:name Comparison of seven DNA extraction and amplification protocols in historical herbarium specimens of juncaceae
26 schema:pagination 161-175
27 schema:productId N625cd966d6e9497b89758af368d7675d
28 N798f290f18444b04ab99156d4a194114
29 Nc0becb89dcbd410cb3c98658716976e5
30 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022200420
31 https://doi.org/10.1007/bf02799431
32 schema:sdDatePublished 2019-04-11T01:05
33 schema:sdLicense https://scigraph.springernature.com/explorer/license/
34 schema:sdPublisher N6402000750324b8dae6eee77958b7ca0
35 schema:url http://link.springer.com/10.1007%2FBF02799431
36 sgo:license sg:explorer/license/
37 sgo:sdDataset articles
38 rdf:type schema:ScholarlyArticle
39 N26828a1ff47b42e4bf005a921c0c1f6b rdf:first sg:person.011105232722.92
40 rdf:rest N76c9d0e835024b08a035f81f4879bbea
41 N2f97e52407a74d8c94df0b10e321c801 rdf:first sg:person.01343264514.15
42 rdf:rest N26828a1ff47b42e4bf005a921c0c1f6b
43 N625cd966d6e9497b89758af368d7675d schema:name dimensions_id
44 schema:value pub.1022200420
45 rdf:type schema:PropertyValue
46 N6402000750324b8dae6eee77958b7ca0 schema:name Springer Nature - SN SciGraph project
47 rdf:type schema:Organization
48 N76c9d0e835024b08a035f81f4879bbea rdf:first sg:person.0737354613.59
49 rdf:rest rdf:nil
50 N798f290f18444b04ab99156d4a194114 schema:name readcube_id
51 schema:value 69c4dfc3d53b9412d0bb3eaf2618a7d75ff68192035a28853bab2aafa1fcc521
52 rdf:type schema:PropertyValue
53 Naccdd923e9b74df38f296ad70692b132 schema:issueNumber 2
54 rdf:type schema:PublicationIssue
55 Nc0becb89dcbd410cb3c98658716976e5 schema:name doi
56 schema:value 10.1007/bf02799431
57 rdf:type schema:PropertyValue
58 Nc62184b6a6744036a2c81aea44ca2eaf schema:volumeNumber 20
59 rdf:type schema:PublicationVolume
60 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
61 schema:name Biological Sciences
62 rdf:type schema:DefinedTerm
63 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
64 schema:name Genetics
65 rdf:type schema:DefinedTerm
66 sg:journal.1124107 schema:issn 0735-9640
67 1556-469X
68 schema:name Plant Molecular Biology Reporter
69 rdf:type schema:Periodical
70 sg:person.011105232722.92 schema:affiliation https://www.grid.ac/institutes/grid.424923.a
71 schema:familyName Kirschner
72 schema:givenName Jan
73 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011105232722.92
74 rdf:type schema:Person
75 sg:person.01343264514.15 schema:affiliation https://www.grid.ac/institutes/grid.424923.a
76 schema:familyName Drábková
77 schema:givenName Lenka
78 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01343264514.15
79 rdf:type schema:Person
80 sg:person.0737354613.59 schema:affiliation https://www.grid.ac/institutes/grid.418095.1
81 schema:familyName Vlĉek
82 schema:givenName Ĉestmír
83 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0737354613.59
84 rdf:type schema:Person
85 sg:pub.10.1007/978-1-4612-4318-2_11 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003209859
86 https://doi.org/10.1007/978-1-4612-4318-2_11
87 rdf:type schema:CreativeWork
88 sg:pub.10.1007/978-94-009-0019-6_7 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001466908
89 https://doi.org/10.1007/978-94-009-0019-6_7
90 rdf:type schema:CreativeWork
91 sg:pub.10.1007/bf00020088 schema:sameAs https://app.dimensions.ai/details/publication/pub.1047432473
92 https://doi.org/10.1007/bf00020088
93 rdf:type schema:CreativeWork
94 sg:pub.10.1007/bf00037152 schema:sameAs https://app.dimensions.ai/details/publication/pub.1004569744
95 https://doi.org/10.1007/bf00037152
96 rdf:type schema:CreativeWork
97 sg:pub.10.1023/a:1007428009556 schema:sameAs https://app.dimensions.ai/details/publication/pub.1002741691
98 https://doi.org/10.1023/a:1007428009556
99 rdf:type schema:CreativeWork
100 sg:pub.10.1038/35079606 schema:sameAs https://app.dimensions.ai/details/publication/pub.1013671979
101 https://doi.org/10.1038/35079606
102 rdf:type schema:CreativeWork
103 https://doi.org/10.1046/j.1365-294x.1999.00807.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1039733971
104 rdf:type schema:CreativeWork
105 https://doi.org/10.1093/nar/22.18.3801 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016775729
106 rdf:type schema:CreativeWork
107 https://doi.org/10.2307/1220085 schema:sameAs https://app.dimensions.ai/details/publication/pub.1069400578
108 rdf:type schema:CreativeWork
109 https://doi.org/10.2307/1221732 schema:sameAs https://app.dimensions.ai/details/publication/pub.1069401859
110 rdf:type schema:CreativeWork
111 https://doi.org/10.2307/1222203 schema:sameAs https://app.dimensions.ai/details/publication/pub.1069402239
112 rdf:type schema:CreativeWork
113 https://doi.org/10.2307/1223934 schema:sameAs https://app.dimensions.ai/details/publication/pub.1069403689
114 rdf:type schema:CreativeWork
115 https://www.grid.ac/institutes/grid.418095.1 schema:alternateName Academy of Sciences of the Czech Republic
116 schema:name Centre for Integrated Genomics and Institute of Molecular Genetics, Academy of Sciences, Flemingovo nám. 2, 166 37, Prague 6, Czech Republic
117 rdf:type schema:Organization
118 https://www.grid.ac/institutes/grid.424923.a schema:alternateName Institute of Botany
119 schema:name Institute of Botany, Academy of Sciences, Zámek 1, 252 43, Průhonice, Czech Republic
120 rdf:type schema:Organization
 




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


...