Evolution Rates of Genes on Leading and Lagging DNA Strands View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2001-05

AUTHORS

Dorota Szczepanik, Paweł Mackiewicz, Maria Kowalczuk, Agnieszka Gierlik, Aleksandra Nowicka, Mirosław R. Dudek, Stanisław Cebrat

ABSTRACT

One of the main causes of bacterial chromosome asymmetry is replication-associated mutational pressure. Different rates of nucleotide substitution accumulation on leading and lagging strands implicate qualitative and quantitative differences in the accumulation of mutations in protein coding sequences lying on different DNA strands. We show that the divergence rate of orthologs situated on leading strands is lower than the divergence rate of those situated on lagging strands. The ratio of the mutation accumulation rate for sequences lying on lagging strands to that of sequences lying on leading strands is rather stable and time-independent. The divergence rate of sequences which changed their positions, with respect to the direction of replication fork movement, is not stable-sequences which have recently changed their positions are the most prone to mutation accumulation. This effect may influence estimations of evolutionary distances between species and the topology of phylogenetic trees. More... »

PAGES

426-433

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s002390010172

DOI

http://dx.doi.org/10.1007/s002390010172

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1016000264

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/11443346


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"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Amino Acid Substitution", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Chromosomes, Bacterial", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA Replication", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA, Bacterial", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA, Single-Stranded", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Evolution, Molecular", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Genes, Bacterial", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Kinetics", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Mutagenesis", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "University of Wroc\u0142aw", 
          "id": "https://www.grid.ac/institutes/grid.8505.8", 
          "name": [
            "Institute of Microbiology, Wroc\u0142aw University, ul. Przybyszewskiego 63/77, 51-148 Wroc\u0142aw, Poland, PL"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Szczepanik", 
        "givenName": "Dorota", 
        "id": "sg:person.0640345003.11", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0640345003.11"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Wroc\u0142aw", 
          "id": "https://www.grid.ac/institutes/grid.8505.8", 
          "name": [
            "Institute of Microbiology, Wroc\u0142aw University, ul. Przybyszewskiego 63/77, 51-148 Wroc\u0142aw, Poland, PL"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Mackiewicz", 
        "givenName": "Pawe\u0142", 
        "id": "sg:person.01063425367.44", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01063425367.44"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Wroc\u0142aw", 
          "id": "https://www.grid.ac/institutes/grid.8505.8", 
          "name": [
            "Institute of Microbiology, Wroc\u0142aw University, ul. Przybyszewskiego 63/77, 51-148 Wroc\u0142aw, Poland, PL"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Kowalczuk", 
        "givenName": "Maria", 
        "id": "sg:person.01307721346.96", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01307721346.96"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Wroc\u0142aw", 
          "id": "https://www.grid.ac/institutes/grid.8505.8", 
          "name": [
            "Institute of Microbiology, Wroc\u0142aw University, ul. Przybyszewskiego 63/77, 51-148 Wroc\u0142aw, Poland, PL"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Gierlik", 
        "givenName": "Agnieszka", 
        "id": "sg:person.01022706603.28", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01022706603.28"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Wroc\u0142aw", 
          "id": "https://www.grid.ac/institutes/grid.8505.8", 
          "name": [
            "Institute of Microbiology, Wroc\u0142aw University, ul. Przybyszewskiego 63/77, 51-148 Wroc\u0142aw, Poland, PL"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Nowicka", 
        "givenName": "Aleksandra", 
        "id": "sg:person.01024703102.51", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01024703102.51"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Wroc\u0142aw", 
          "id": "https://www.grid.ac/institutes/grid.8505.8", 
          "name": [
            "Institute of Microbiology, Wroc\u0142aw University, ul. Przybyszewskiego 63/77, 51-148 Wroc\u0142aw, Poland, PL"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Dudek", 
        "givenName": "Miros\u0142aw R.", 
        "id": "sg:person.0613430474.51", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0613430474.51"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Wroc\u0142aw", 
          "id": "https://www.grid.ac/institutes/grid.8505.8", 
          "name": [
            "Institute of Microbiology, Wroc\u0142aw University, ul. Przybyszewskiego 63/77, 51-148 Wroc\u0142aw, Poland, PL"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Cebrat", 
        "givenName": "Stanis\u0142aw", 
        "id": "sg:person.01160531403.56", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01160531403.56"
        ], 
        "type": "Person"
      }
    ], 
    "datePublished": "2001-05", 
    "datePublishedReg": "2001-05-01", 
    "description": "One of the main causes of bacterial chromosome asymmetry is replication-associated mutational pressure. Different rates of nucleotide substitution accumulation on leading and lagging strands implicate qualitative and quantitative differences in the accumulation of mutations in protein coding sequences lying on different DNA strands. We show that the divergence rate of orthologs situated on leading strands is lower than the divergence rate of those situated on lagging strands. The ratio of the mutation accumulation rate for sequences lying on lagging strands to that of sequences lying on leading strands is rather stable and time-independent. The divergence rate of sequences which changed their positions, with respect to the direction of replication fork movement, is not stable-sequences which have recently changed their positions are the most prone to mutation accumulation. This effect may influence estimations of evolutionary distances between species and the topology of phylogenetic trees.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1007/s002390010172", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": true, 
    "isPartOf": [
      {
        "id": "sg:journal.1016442", 
        "issn": [
          "0022-2844", 
          "1432-1432"
        ], 
        "name": "Journal of Molecular Evolution", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "5", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "52"
      }
    ], 
    "name": "Evolution Rates of Genes on Leading and Lagging DNA Strands", 
    "pagination": "426-433", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "4c3ce25ce031d1bc37e65ad437dd33d3e3c154de852c8c6ce4321148df97896f"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "11443346"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "0360051"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/s002390010172"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1016000264"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1007/s002390010172", 
      "https://app.dimensions.ai/details/publication/pub.1016000264"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-10T22:31", 
    "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_8690_00000511.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "http://link.springer.com/10.1007%2Fs002390010172"
  }
]
 

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/s002390010172'

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/s002390010172'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/s002390010172'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/s002390010172'


 

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

147 TRIPLES      20 PREDICATES      38 URIs      30 LITERALS      18 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/s002390010172 schema:about N42b15a39f625441c86d3162767482fcf
2 N5b7d19233ab249fdb93ad6251e851d36
3 N8568d2fc09f848a9bf6109f05ad88a1c
4 N8dc69abbcaeb4b56ba3980714e287cfd
5 N9b5c76abcc644428b4ea33eccb4744d1
6 Na5500122206b4f06bab4c5d8378c05bc
7 Nc4c7cc12817d492abc686cccd5fb0ed6
8 Nceeb73df1f064dd1b110e1d1c1180516
9 Nd0f54825aa614bbcab233996f5ee18d5
10 anzsrc-for:06
11 anzsrc-for:0604
12 schema:author N6d8d6c312c3b4386b86c2b1e600cb3f0
13 schema:datePublished 2001-05
14 schema:datePublishedReg 2001-05-01
15 schema:description One of the main causes of bacterial chromosome asymmetry is replication-associated mutational pressure. Different rates of nucleotide substitution accumulation on leading and lagging strands implicate qualitative and quantitative differences in the accumulation of mutations in protein coding sequences lying on different DNA strands. We show that the divergence rate of orthologs situated on leading strands is lower than the divergence rate of those situated on lagging strands. The ratio of the mutation accumulation rate for sequences lying on lagging strands to that of sequences lying on leading strands is rather stable and time-independent. The divergence rate of sequences which changed their positions, with respect to the direction of replication fork movement, is not stable-sequences which have recently changed their positions are the most prone to mutation accumulation. This effect may influence estimations of evolutionary distances between species and the topology of phylogenetic trees.
16 schema:genre research_article
17 schema:inLanguage en
18 schema:isAccessibleForFree true
19 schema:isPartOf N6e7036e972eb4c11b23343d08d0c5af2
20 Na319f7fd15634c3889f1717bd5180db2
21 sg:journal.1016442
22 schema:name Evolution Rates of Genes on Leading and Lagging DNA Strands
23 schema:pagination 426-433
24 schema:productId N03ae9c0c81e74be383c7f7292e6d1d90
25 N1662a5d3e47b4046b52205f45f3011f9
26 N20c5d373defa49cb8c4085f091542af8
27 N3ca529ff8d794c41bf879f41beb2e633
28 N5ace4386e85a43779485e319189a1946
29 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016000264
30 https://doi.org/10.1007/s002390010172
31 schema:sdDatePublished 2019-04-10T22:31
32 schema:sdLicense https://scigraph.springernature.com/explorer/license/
33 schema:sdPublisher N783a141d8c1846d181a1c8fd12775a35
34 schema:url http://link.springer.com/10.1007%2Fs002390010172
35 sgo:license sg:explorer/license/
36 sgo:sdDataset articles
37 rdf:type schema:ScholarlyArticle
38 N03ae9c0c81e74be383c7f7292e6d1d90 schema:name doi
39 schema:value 10.1007/s002390010172
40 rdf:type schema:PropertyValue
41 N05d5cba347ff4d45b6dbbb69a1ac1de6 rdf:first sg:person.0613430474.51
42 rdf:rest Nadfeda8244bc4d9596d79edf812888b7
43 N1662a5d3e47b4046b52205f45f3011f9 schema:name nlm_unique_id
44 schema:value 0360051
45 rdf:type schema:PropertyValue
46 N20c5d373defa49cb8c4085f091542af8 schema:name pubmed_id
47 schema:value 11443346
48 rdf:type schema:PropertyValue
49 N34e1ee19984e4ae6abd0dcf0556fd1cf rdf:first sg:person.01063425367.44
50 rdf:rest N4bf2360a1a004250b44ba20d527a5a50
51 N3ca529ff8d794c41bf879f41beb2e633 schema:name dimensions_id
52 schema:value pub.1016000264
53 rdf:type schema:PropertyValue
54 N42b15a39f625441c86d3162767482fcf schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
55 schema:name Genes, Bacterial
56 rdf:type schema:DefinedTerm
57 N4bf2360a1a004250b44ba20d527a5a50 rdf:first sg:person.01307721346.96
58 rdf:rest Nfe48e8d28e63418bb6cc761089de755b
59 N5ace4386e85a43779485e319189a1946 schema:name readcube_id
60 schema:value 4c3ce25ce031d1bc37e65ad437dd33d3e3c154de852c8c6ce4321148df97896f
61 rdf:type schema:PropertyValue
62 N5b7d19233ab249fdb93ad6251e851d36 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
63 schema:name Chromosomes, Bacterial
64 rdf:type schema:DefinedTerm
65 N6d8d6c312c3b4386b86c2b1e600cb3f0 rdf:first sg:person.0640345003.11
66 rdf:rest N34e1ee19984e4ae6abd0dcf0556fd1cf
67 N6e7036e972eb4c11b23343d08d0c5af2 schema:issueNumber 5
68 rdf:type schema:PublicationIssue
69 N783a141d8c1846d181a1c8fd12775a35 schema:name Springer Nature - SN SciGraph project
70 rdf:type schema:Organization
71 N8568d2fc09f848a9bf6109f05ad88a1c schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
72 schema:name Evolution, Molecular
73 rdf:type schema:DefinedTerm
74 N8dc69abbcaeb4b56ba3980714e287cfd schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
75 schema:name Kinetics
76 rdf:type schema:DefinedTerm
77 N9b5c76abcc644428b4ea33eccb4744d1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
78 schema:name Mutagenesis
79 rdf:type schema:DefinedTerm
80 Na319f7fd15634c3889f1717bd5180db2 schema:volumeNumber 52
81 rdf:type schema:PublicationVolume
82 Na5500122206b4f06bab4c5d8378c05bc schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
83 schema:name DNA, Bacterial
84 rdf:type schema:DefinedTerm
85 Nadfeda8244bc4d9596d79edf812888b7 rdf:first sg:person.01160531403.56
86 rdf:rest rdf:nil
87 Nc4c7cc12817d492abc686cccd5fb0ed6 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
88 schema:name DNA, Single-Stranded
89 rdf:type schema:DefinedTerm
90 Nceeb73df1f064dd1b110e1d1c1180516 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
91 schema:name DNA Replication
92 rdf:type schema:DefinedTerm
93 Nd0f54825aa614bbcab233996f5ee18d5 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
94 schema:name Amino Acid Substitution
95 rdf:type schema:DefinedTerm
96 Nf48a726c765d4b9184104a8acdd6193f rdf:first sg:person.01024703102.51
97 rdf:rest N05d5cba347ff4d45b6dbbb69a1ac1de6
98 Nfe48e8d28e63418bb6cc761089de755b rdf:first sg:person.01022706603.28
99 rdf:rest Nf48a726c765d4b9184104a8acdd6193f
100 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
101 schema:name Biological Sciences
102 rdf:type schema:DefinedTerm
103 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
104 schema:name Genetics
105 rdf:type schema:DefinedTerm
106 sg:journal.1016442 schema:issn 0022-2844
107 1432-1432
108 schema:name Journal of Molecular Evolution
109 rdf:type schema:Periodical
110 sg:person.01022706603.28 schema:affiliation https://www.grid.ac/institutes/grid.8505.8
111 schema:familyName Gierlik
112 schema:givenName Agnieszka
113 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01022706603.28
114 rdf:type schema:Person
115 sg:person.01024703102.51 schema:affiliation https://www.grid.ac/institutes/grid.8505.8
116 schema:familyName Nowicka
117 schema:givenName Aleksandra
118 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01024703102.51
119 rdf:type schema:Person
120 sg:person.01063425367.44 schema:affiliation https://www.grid.ac/institutes/grid.8505.8
121 schema:familyName Mackiewicz
122 schema:givenName Paweł
123 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01063425367.44
124 rdf:type schema:Person
125 sg:person.01160531403.56 schema:affiliation https://www.grid.ac/institutes/grid.8505.8
126 schema:familyName Cebrat
127 schema:givenName Stanisław
128 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01160531403.56
129 rdf:type schema:Person
130 sg:person.01307721346.96 schema:affiliation https://www.grid.ac/institutes/grid.8505.8
131 schema:familyName Kowalczuk
132 schema:givenName Maria
133 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01307721346.96
134 rdf:type schema:Person
135 sg:person.0613430474.51 schema:affiliation https://www.grid.ac/institutes/grid.8505.8
136 schema:familyName Dudek
137 schema:givenName Mirosław R.
138 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0613430474.51
139 rdf:type schema:Person
140 sg:person.0640345003.11 schema:affiliation https://www.grid.ac/institutes/grid.8505.8
141 schema:familyName Szczepanik
142 schema:givenName Dorota
143 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0640345003.11
144 rdf:type schema:Person
145 https://www.grid.ac/institutes/grid.8505.8 schema:alternateName University of Wrocław
146 schema:name Institute of Microbiology, Wrocław University, ul. Przybyszewskiego 63/77, 51-148 Wrocław, Poland, PL
147 rdf:type schema:Organization
 




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


...