Identification, cloning, and sequencing of DNA essential for encapsulation of Streptococcus pneumoniae View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

1995-10

AUTHORS

David A. Watson, Vivek Kapur, Daniel M. Musher, James W. Jacobson, James M. Musser

ABSTRACT

This paper reports the cloning and sequencing of a region of DNA from Streptococcus pneumoniae serotype 3 surrounding transposon Tn916, insertion of which was previously shown to result in lack of expression of the extracellular capsule. Sequence analysis revealed that the transposon inserted into a consensus insertion site 71 bp from the 5′ end of the cloned fragment. Within the clone, 3′ downstream regions from two different pneumococcal lytA genes were identified, as well as a putative 194 AA open reading frame (ORF1). Moreover, two copies of the repeat element BOX, oriented in opposite directions, were located immediately 3′ of orf1. Within the region bounded by the first pair of internal sequencing primers, analysis revealed that the fragment amplified by PCR was always of the same size. Moreover, Southern blotting showed that for all serotypes examined to date, homology exists with the cloned fragment. These results indicate that this region of the chromosome is highly conserved and, taken together with other independently derived data, suggest that interruptions or deletions within this DNA lead to unencapsulation. More... »

PAGES

251-259

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/bf00298383

DOI

http://dx.doi.org/10.1007/bf00298383

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1015662247

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/7549771


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"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Bacterial Capsules", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Base Sequence", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Blotting, Southern", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Cloning, Molecular", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA, Bacterial", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Molecular Sequence Data", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Polymerase Chain Reaction", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Streptococcus pneumoniae", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Section of Infectious Disease, Veterans Affairs Medical Center, 77030, Houston, TX, USA", 
          "id": "http://www.grid.ac/institutes/grid.413890.7", 
          "name": [
            "Department of Biology, University of Houston, 77030, Houston, TX, USA", 
            "Section of Infectious Disease, Veterans Affairs Medical Center, 77030, Houston, TX, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Watson", 
        "givenName": "David A.", 
        "id": "sg:person.0724305273.29", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0724305273.29"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Microbiology and Immunology, Baylor College of Medicine, 77030, Houston, TX, USA", 
          "id": "http://www.grid.ac/institutes/grid.39382.33", 
          "name": [
            "Department of Microbiology and Immunology, Baylor College of Medicine, 77030, Houston, TX, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Kapur", 
        "givenName": "Vivek", 
        "id": "sg:person.0631114411.35", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0631114411.35"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Section of Infectious Disease, Veterans Affairs Medical Center, 77030, Houston, TX, USA", 
          "id": "http://www.grid.ac/institutes/grid.413890.7", 
          "name": [
            "Department of Microbiology and Immunology, Baylor College of Medicine, 77030, Houston, TX, USA", 
            "Section of Infectious Disease, Veterans Affairs Medical Center, 77030, Houston, TX, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Musher", 
        "givenName": "Daniel M.", 
        "id": "sg:person.01302464354.80", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01302464354.80"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Biology, University of Houston, 77030, Houston, TX, USA", 
          "id": "http://www.grid.ac/institutes/grid.266436.3", 
          "name": [
            "Department of Biology, University of Houston, 77030, Houston, TX, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Jacobson", 
        "givenName": "James W.", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Microbiology and Immunology, Baylor College of Medicine, 77030, Houston, TX, USA", 
          "id": "http://www.grid.ac/institutes/grid.39382.33", 
          "name": [
            "Department of Microbiology and Immunology, Baylor College of Medicine, 77030, Houston, TX, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Musser", 
        "givenName": "James M.", 
        "id": "sg:person.0661603131.54", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0661603131.54"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "sg:pub.10.1007/bf00329844", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1023307559", 
          "https://doi.org/10.1007/bf00329844"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf00281617", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1082838102", 
          "https://doi.org/10.1007/bf00281617"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "1995-10", 
    "datePublishedReg": "1995-10-01", 
    "description": "This paper reports the cloning and sequencing of a region of DNA from Streptococcus pneumoniae serotype 3 surrounding transposon Tn916, insertion of which was previously shown to result in lack of expression of the extracellular capsule. Sequence analysis revealed that the transposon inserted into a consensus insertion site 71 bp from the 5\u2032 end of the cloned fragment. Within the clone, 3\u2032 downstream regions from two different pneumococcal lytA genes were identified, as well as a putative 194 AA open reading frame (ORF1). Moreover, two copies of the repeat element BOX, oriented in opposite directions, were located immediately 3\u2032 of orf1. Within the region bounded by the first pair of internal sequencing primers, analysis revealed that the fragment amplified by PCR was always of the same size. Moreover, Southern blotting showed that for all serotypes examined to date, homology exists with the cloned fragment. These results indicate that this region of the chromosome is highly conserved and, taken together with other independently derived data, suggest that interruptions or deletions within this DNA lead to unencapsulation.", 
    "genre": "article", 
    "id": "sg:pub.10.1007/bf00298383", 
    "inLanguage": "en", 
    "isAccessibleForFree": false, 
    "isPartOf": [
      {
        "id": "sg:journal.1088675", 
        "issn": [
          "0343-8651", 
          "1432-0991"
        ], 
        "name": "Current Microbiology", 
        "publisher": "Springer Nature", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "4", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "31"
      }
    ], 
    "keywords": [
      "Streptococcus pneumoniae serotype 3", 
      "pneumoniae serotype 3", 
      "serotype 3", 
      "lack of expression", 
      "Streptococcus pneumoniae", 
      "sequencing", 
      "transposon Tn916", 
      "expression", 
      "extracellular capsule", 
      "capsule", 
      "pneumococcal lytA gene", 
      "lytA gene", 
      "PCR", 
      "Southern blotting", 
      "blotting", 
      "serotypes", 
      "interruption", 
      "unencapsulation", 
      "pneumoniae", 
      "cloning", 
      "region of DNA", 
      "region", 
      "DNA", 
      "Tn916", 
      "insertion", 
      "lack", 
      "sequence analysis", 
      "analysis", 
      "BP", 
      "end", 
      "fragments", 
      "clones", 
      "genes", 
      "open reading frame", 
      "reading frame", 
      "copies", 
      "opposite direction", 
      "ORF1", 
      "first pair", 
      "sequencing primers", 
      "primers", 
      "same size", 
      "size", 
      "date", 
      "homology", 
      "results", 
      "chromosomes", 
      "data", 
      "deletion", 
      "DNA lead", 
      "lead", 
      "identification", 
      "DNA essential", 
      "essential", 
      "paper", 
      "transposon", 
      "downstream region", 
      "frame", 
      "box", 
      "direction", 
      "pairs", 
      "internal sequencing primers", 
      "encapsulation", 
      "consensus insertion site 71 bp", 
      "insertion site 71 bp", 
      "site 71 bp", 
      "different pneumococcal lytA genes", 
      "AA open reading frame", 
      "repeat element BOX", 
      "element BOX"
    ], 
    "name": "Identification, cloning, and sequencing of DNA essential for encapsulation of Streptococcus pneumoniae", 
    "pagination": "251-259", 
    "productId": [
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1015662247"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/bf00298383"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "7549771"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1007/bf00298383", 
      "https://app.dimensions.ai/details/publication/pub.1015662247"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2021-12-01T19:09", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-springernature-scigraph/baseset/20211201/entities/gbq_results/article/article_270.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://doi.org/10.1007/bf00298383"
  }
]
 

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/bf00298383'

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/bf00298383'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/bf00298383'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/bf00298383'


 

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

207 TRIPLES      22 PREDICATES      107 URIs      97 LITERALS      15 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/bf00298383 schema:about N23d6862056934c389f22442babc5d31a
2 N34d40d985f4b4fb481db7c37ec4699f6
3 N5e9d88dde4114a789d5569798e1aec10
4 Nc6d9a4af17854e12a87d9fa66578a6df
5 Ncc350500f20b4556a041ae7ae609cec0
6 Nd2c85966b88d40cc981e99de0340fd6d
7 Ne1e682557a0941708a502549fb08be9a
8 Nf3a87850421f4499803d21e89d17edf5
9 anzsrc-for:06
10 anzsrc-for:0604
11 schema:author N1f3c09ead24c486a9bfa85a68727b926
12 schema:citation sg:pub.10.1007/bf00281617
13 sg:pub.10.1007/bf00329844
14 schema:datePublished 1995-10
15 schema:datePublishedReg 1995-10-01
16 schema:description This paper reports the cloning and sequencing of a region of DNA from Streptococcus pneumoniae serotype 3 surrounding transposon Tn916, insertion of which was previously shown to result in lack of expression of the extracellular capsule. Sequence analysis revealed that the transposon inserted into a consensus insertion site 71 bp from the 5′ end of the cloned fragment. Within the clone, 3′ downstream regions from two different pneumococcal lytA genes were identified, as well as a putative 194 AA open reading frame (ORF1). Moreover, two copies of the repeat element BOX, oriented in opposite directions, were located immediately 3′ of orf1. Within the region bounded by the first pair of internal sequencing primers, analysis revealed that the fragment amplified by PCR was always of the same size. Moreover, Southern blotting showed that for all serotypes examined to date, homology exists with the cloned fragment. These results indicate that this region of the chromosome is highly conserved and, taken together with other independently derived data, suggest that interruptions or deletions within this DNA lead to unencapsulation.
17 schema:genre article
18 schema:inLanguage en
19 schema:isAccessibleForFree false
20 schema:isPartOf N1faf5b9e2bab44358cd45750cdaac7ea
21 Na088c27a55bc4621bc0bb40f048056a5
22 sg:journal.1088675
23 schema:keywords AA open reading frame
24 BP
25 DNA
26 DNA essential
27 DNA lead
28 ORF1
29 PCR
30 Southern blotting
31 Streptococcus pneumoniae
32 Streptococcus pneumoniae serotype 3
33 Tn916
34 analysis
35 blotting
36 box
37 capsule
38 chromosomes
39 clones
40 cloning
41 consensus insertion site 71 bp
42 copies
43 data
44 date
45 deletion
46 different pneumococcal lytA genes
47 direction
48 downstream region
49 element BOX
50 encapsulation
51 end
52 essential
53 expression
54 extracellular capsule
55 first pair
56 fragments
57 frame
58 genes
59 homology
60 identification
61 insertion
62 insertion site 71 bp
63 internal sequencing primers
64 interruption
65 lack
66 lack of expression
67 lead
68 lytA gene
69 open reading frame
70 opposite direction
71 pairs
72 paper
73 pneumococcal lytA gene
74 pneumoniae
75 pneumoniae serotype 3
76 primers
77 reading frame
78 region
79 region of DNA
80 repeat element BOX
81 results
82 same size
83 sequence analysis
84 sequencing
85 sequencing primers
86 serotype 3
87 serotypes
88 site 71 bp
89 size
90 transposon
91 transposon Tn916
92 unencapsulation
93 schema:name Identification, cloning, and sequencing of DNA essential for encapsulation of Streptococcus pneumoniae
94 schema:pagination 251-259
95 schema:productId N801cdac564ff48b1ae67bfd12ec8d2eb
96 Nf3539c7431264da2848d8b0ad6a622af
97 Nf73c28d181eb4f62827dc0a3e06822a6
98 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015662247
99 https://doi.org/10.1007/bf00298383
100 schema:sdDatePublished 2021-12-01T19:09
101 schema:sdLicense https://scigraph.springernature.com/explorer/license/
102 schema:sdPublisher N4d53f840f9be477da08e94e150b4107c
103 schema:url https://doi.org/10.1007/bf00298383
104 sgo:license sg:explorer/license/
105 sgo:sdDataset articles
106 rdf:type schema:ScholarlyArticle
107 N1f3c09ead24c486a9bfa85a68727b926 rdf:first sg:person.0724305273.29
108 rdf:rest Ncb144ccb4cf9451c8616bfa9b99ac3f6
109 N1faf5b9e2bab44358cd45750cdaac7ea schema:volumeNumber 31
110 rdf:type schema:PublicationVolume
111 N23d6862056934c389f22442babc5d31a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
112 schema:name Bacterial Capsules
113 rdf:type schema:DefinedTerm
114 N34d40d985f4b4fb481db7c37ec4699f6 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
115 schema:name Streptococcus pneumoniae
116 rdf:type schema:DefinedTerm
117 N37befaffa5244524afa633e80a3ac56e rdf:first sg:person.01302464354.80
118 rdf:rest Nd71e56e8095740eb9d0a06b6d2e7b101
119 N3f3e75d9ed2d43319d188d410acb90b8 schema:affiliation grid-institutes:grid.266436.3
120 schema:familyName Jacobson
121 schema:givenName James W.
122 rdf:type schema:Person
123 N4d53f840f9be477da08e94e150b4107c schema:name Springer Nature - SN SciGraph project
124 rdf:type schema:Organization
125 N5239f68ece684c8a824ffa57a6da2d05 rdf:first sg:person.0661603131.54
126 rdf:rest rdf:nil
127 N5e9d88dde4114a789d5569798e1aec10 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
128 schema:name Cloning, Molecular
129 rdf:type schema:DefinedTerm
130 N801cdac564ff48b1ae67bfd12ec8d2eb schema:name doi
131 schema:value 10.1007/bf00298383
132 rdf:type schema:PropertyValue
133 Na088c27a55bc4621bc0bb40f048056a5 schema:issueNumber 4
134 rdf:type schema:PublicationIssue
135 Nc6d9a4af17854e12a87d9fa66578a6df schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
136 schema:name Base Sequence
137 rdf:type schema:DefinedTerm
138 Ncb144ccb4cf9451c8616bfa9b99ac3f6 rdf:first sg:person.0631114411.35
139 rdf:rest N37befaffa5244524afa633e80a3ac56e
140 Ncc350500f20b4556a041ae7ae609cec0 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
141 schema:name Molecular Sequence Data
142 rdf:type schema:DefinedTerm
143 Nd2c85966b88d40cc981e99de0340fd6d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
144 schema:name DNA, Bacterial
145 rdf:type schema:DefinedTerm
146 Nd71e56e8095740eb9d0a06b6d2e7b101 rdf:first N3f3e75d9ed2d43319d188d410acb90b8
147 rdf:rest N5239f68ece684c8a824ffa57a6da2d05
148 Ne1e682557a0941708a502549fb08be9a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
149 schema:name Blotting, Southern
150 rdf:type schema:DefinedTerm
151 Nf3539c7431264da2848d8b0ad6a622af schema:name pubmed_id
152 schema:value 7549771
153 rdf:type schema:PropertyValue
154 Nf3a87850421f4499803d21e89d17edf5 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
155 schema:name Polymerase Chain Reaction
156 rdf:type schema:DefinedTerm
157 Nf73c28d181eb4f62827dc0a3e06822a6 schema:name dimensions_id
158 schema:value pub.1015662247
159 rdf:type schema:PropertyValue
160 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
161 schema:name Biological Sciences
162 rdf:type schema:DefinedTerm
163 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
164 schema:name Genetics
165 rdf:type schema:DefinedTerm
166 sg:journal.1088675 schema:issn 0343-8651
167 1432-0991
168 schema:name Current Microbiology
169 schema:publisher Springer Nature
170 rdf:type schema:Periodical
171 sg:person.01302464354.80 schema:affiliation grid-institutes:grid.413890.7
172 schema:familyName Musher
173 schema:givenName Daniel M.
174 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01302464354.80
175 rdf:type schema:Person
176 sg:person.0631114411.35 schema:affiliation grid-institutes:grid.39382.33
177 schema:familyName Kapur
178 schema:givenName Vivek
179 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0631114411.35
180 rdf:type schema:Person
181 sg:person.0661603131.54 schema:affiliation grid-institutes:grid.39382.33
182 schema:familyName Musser
183 schema:givenName James M.
184 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0661603131.54
185 rdf:type schema:Person
186 sg:person.0724305273.29 schema:affiliation grid-institutes:grid.413890.7
187 schema:familyName Watson
188 schema:givenName David A.
189 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0724305273.29
190 rdf:type schema:Person
191 sg:pub.10.1007/bf00281617 schema:sameAs https://app.dimensions.ai/details/publication/pub.1082838102
192 https://doi.org/10.1007/bf00281617
193 rdf:type schema:CreativeWork
194 sg:pub.10.1007/bf00329844 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023307559
195 https://doi.org/10.1007/bf00329844
196 rdf:type schema:CreativeWork
197 grid-institutes:grid.266436.3 schema:alternateName Department of Biology, University of Houston, 77030, Houston, TX, USA
198 schema:name Department of Biology, University of Houston, 77030, Houston, TX, USA
199 rdf:type schema:Organization
200 grid-institutes:grid.39382.33 schema:alternateName Department of Microbiology and Immunology, Baylor College of Medicine, 77030, Houston, TX, USA
201 schema:name Department of Microbiology and Immunology, Baylor College of Medicine, 77030, Houston, TX, USA
202 rdf:type schema:Organization
203 grid-institutes:grid.413890.7 schema:alternateName Section of Infectious Disease, Veterans Affairs Medical Center, 77030, Houston, TX, USA
204 schema:name Department of Biology, University of Houston, 77030, Houston, TX, USA
205 Department of Microbiology and Immunology, Baylor College of Medicine, 77030, Houston, TX, USA
206 Section of Infectious Disease, Veterans Affairs Medical Center, 77030, Houston, TX, USA
207 rdf:type schema:Organization
 




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


...