Molecular analysis of three new Cherry mottle leaf virus isolates reveals intra-species genetic diversity and inter-species gene transfer View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2016-09

AUTHORS

Li Su, Basdeo Bhagwat, Mike Bernardy, Paul A. Wiersma, Zhihui Cheng, Yu Xiang

ABSTRACT

Cherry mottle leaf virus (CMLV) is a pathogen of sweet cherry and several other plant species in the genus Prunus, but only two isolates of the virus were reported previously. Here we determined the complete genome sequences of three CMLV isolates that were collected during 1980s. The coat protein of the CMLV was estimated to be about 22 kDa by protein western blot assay, and agree with the size expected based on their genome sequences. The three isolates share 78.4 to 82.7 % identities at the nucleotide sequence level between each other and 78.7 to 84.3 % identities to the two previously published CMLV isolates SA1162-21 and 95CI215. The high genome sequence divergences among the CMLV isolates were supported by phylogeny analysis. Possible inter-species gene transfer between CMLV and the other species in the genus Trichovirus was revealed by the RDP recombination analysis algorithms. More... »

PAGES

571-574

References to SciGraph publications

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s12600-016-0548-8

DOI

http://dx.doi.org/10.1007/s12600-016-0548-8

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1019552149


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": "Agriculture and Agriculture-Food Canada", 
          "id": "https://www.grid.ac/institutes/grid.55614.33", 
          "name": [
            "College of Horticulture, Northwest A&F University, 712100, Yangling, Shaanxi, China", 
            "Agriculture and Agri-Food Canada, Summerland Research and Development Centre, V0H 1Z0, Summerland, BC, Canada"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Su", 
        "givenName": "Li", 
        "id": "sg:person.0752475435.54", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0752475435.54"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Agriculture and Agriculture-Food Canada", 
          "id": "https://www.grid.ac/institutes/grid.55614.33", 
          "name": [
            "Agriculture and Agri-Food Canada, Summerland Research and Development Centre, V0H 1Z0, Summerland, BC, Canada"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Bhagwat", 
        "givenName": "Basdeo", 
        "id": "sg:person.01116003736.49", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01116003736.49"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Agriculture and Agriculture-Food Canada", 
          "id": "https://www.grid.ac/institutes/grid.55614.33", 
          "name": [
            "Agriculture and Agri-Food Canada, Summerland Research and Development Centre, V0H 1Z0, Summerland, BC, Canada"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Bernardy", 
        "givenName": "Mike", 
        "id": "sg:person.01231212564.93", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01231212564.93"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Agriculture and Agriculture-Food Canada", 
          "id": "https://www.grid.ac/institutes/grid.55614.33", 
          "name": [
            "Agriculture and Agri-Food Canada, Summerland Research and Development Centre, V0H 1Z0, Summerland, BC, Canada"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Wiersma", 
        "givenName": "Paul A.", 
        "id": "sg:person.01361300117.93", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01361300117.93"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "North West Agriculture and Forestry University", 
          "id": "https://www.grid.ac/institutes/grid.144022.1", 
          "name": [
            "College of Horticulture, Northwest A&F University, 712100, Yangling, Shaanxi, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Cheng", 
        "givenName": "Zhihui", 
        "id": "sg:person.01314560762.73", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01314560762.73"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Agriculture and Agriculture-Food Canada", 
          "id": "https://www.grid.ac/institutes/grid.55614.33", 
          "name": [
            "Agriculture and Agri-Food Canada, Summerland Research and Development Centre, V0H 1Z0, Summerland, BC, Canada"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Xiang", 
        "givenName": "Yu", 
        "id": "sg:person.0623725341.50", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0623725341.50"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.1093/molbev/mst197", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001444669"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00705-014-2031-5", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1002381463", 
          "https://doi.org/10.1007/s00705-014-2031-5"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00705-013-1698-3", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1010448863", 
          "https://doi.org/10.1007/s00705-013-1698-3"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00705-013-1698-3", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1010448863", 
          "https://doi.org/10.1007/s00705-013-1698-3"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1146/annurev.phyto.45.062806.094401", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1014409204"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/gkj023", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016747792"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s007050050690", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1020881134", 
          "https://doi.org/10.1007/s007050050690"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.2144/000114133", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1029799849"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/ve/vev003", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1034021905"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/jph.12121", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1050971321"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1094/pd-77-0271", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060086001"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1094/pdis-01-14-0058-pdn", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060088504"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1094/pdis-01-14-0058-pdn", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060088504"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1094/phyto-96-0137", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060100201"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1094/phyto-69-854", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060105858"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2016-09", 
    "datePublishedReg": "2016-09-01", 
    "description": "Cherry mottle leaf virus (CMLV) is a pathogen of sweet cherry and several other plant species in the genus Prunus, but only two isolates of the virus were reported previously. Here we determined the complete genome sequences of three CMLV isolates that were collected during 1980s. The coat protein of the CMLV was estimated to be about 22 kDa by protein western blot assay, and agree with the size expected based on their genome sequences. The three isolates share 78.4 to 82.7 % identities at the nucleotide sequence level between each other and 78.7 to 84.3 % identities to the two previously published CMLV isolates SA1162-21 and 95CI215. The high genome sequence divergences among the CMLV isolates were supported by phylogeny analysis. Possible inter-species gene transfer between CMLV and the other species in the genus Trichovirus was revealed by the RDP recombination analysis algorithms.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1007/s12600-016-0548-8", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isPartOf": [
      {
        "id": "sg:journal.1121015", 
        "issn": [
          "0334-2123", 
          "1876-7184"
        ], 
        "name": "Phytoparasitica", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "4", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "44"
      }
    ], 
    "name": "Molecular analysis of three new Cherry mottle leaf virus isolates reveals intra-species genetic diversity and inter-species gene transfer", 
    "pagination": "571-574", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "5d28b1a3815e8bd49f2e31ec29d992724e61b4d323e980f88ca927dc5e3c439c"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/s12600-016-0548-8"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1019552149"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1007/s12600-016-0548-8", 
      "https://app.dimensions.ai/details/publication/pub.1019552149"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-11T12:40", 
    "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/v90/0000000363_0000000363/records_70053_00000000.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://link.springer.com/10.1007%2Fs12600-016-0548-8"
  }
]
 

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/s12600-016-0548-8'

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/s12600-016-0548-8'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/s12600-016-0548-8'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/s12600-016-0548-8'


 

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

142 TRIPLES      21 PREDICATES      40 URIs      19 LITERALS      7 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/s12600-016-0548-8 schema:about anzsrc-for:06
2 anzsrc-for:0604
3 schema:author Nd74a129346754a339ff7f8d4dde891d3
4 schema:citation sg:pub.10.1007/s00705-013-1698-3
5 sg:pub.10.1007/s00705-014-2031-5
6 sg:pub.10.1007/s007050050690
7 https://doi.org/10.1093/molbev/mst197
8 https://doi.org/10.1093/nar/gkj023
9 https://doi.org/10.1093/ve/vev003
10 https://doi.org/10.1094/pd-77-0271
11 https://doi.org/10.1094/pdis-01-14-0058-pdn
12 https://doi.org/10.1094/phyto-69-854
13 https://doi.org/10.1094/phyto-96-0137
14 https://doi.org/10.1111/jph.12121
15 https://doi.org/10.1146/annurev.phyto.45.062806.094401
16 https://doi.org/10.2144/000114133
17 schema:datePublished 2016-09
18 schema:datePublishedReg 2016-09-01
19 schema:description Cherry mottle leaf virus (CMLV) is a pathogen of sweet cherry and several other plant species in the genus Prunus, but only two isolates of the virus were reported previously. Here we determined the complete genome sequences of three CMLV isolates that were collected during 1980s. The coat protein of the CMLV was estimated to be about 22 kDa by protein western blot assay, and agree with the size expected based on their genome sequences. The three isolates share 78.4 to 82.7 % identities at the nucleotide sequence level between each other and 78.7 to 84.3 % identities to the two previously published CMLV isolates SA1162-21 and 95CI215. The high genome sequence divergences among the CMLV isolates were supported by phylogeny analysis. Possible inter-species gene transfer between CMLV and the other species in the genus Trichovirus was revealed by the RDP recombination analysis algorithms.
20 schema:genre research_article
21 schema:inLanguage en
22 schema:isAccessibleForFree false
23 schema:isPartOf N41e5bc87c5bc449a89cc717362916444
24 N97d7e52b8c424bf0af90a081dee68252
25 sg:journal.1121015
26 schema:name Molecular analysis of three new Cherry mottle leaf virus isolates reveals intra-species genetic diversity and inter-species gene transfer
27 schema:pagination 571-574
28 schema:productId N431eb7b8587e4507badcd473434ed766
29 N7ace7d01bce240b48bf67bfa33ac5c4d
30 Ndf7d909c943d4c939abe649f1d04c47b
31 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019552149
32 https://doi.org/10.1007/s12600-016-0548-8
33 schema:sdDatePublished 2019-04-11T12:40
34 schema:sdLicense https://scigraph.springernature.com/explorer/license/
35 schema:sdPublisher N297cb3a7b18d4c6f8cc1c6b5b2e21ab1
36 schema:url https://link.springer.com/10.1007%2Fs12600-016-0548-8
37 sgo:license sg:explorer/license/
38 sgo:sdDataset articles
39 rdf:type schema:ScholarlyArticle
40 N18af2e3fa55d4d818fc899a993235029 rdf:first sg:person.01314560762.73
41 rdf:rest N21fc59b4535949928ab6dcab1c608bcc
42 N21fc59b4535949928ab6dcab1c608bcc rdf:first sg:person.0623725341.50
43 rdf:rest rdf:nil
44 N297cb3a7b18d4c6f8cc1c6b5b2e21ab1 schema:name Springer Nature - SN SciGraph project
45 rdf:type schema:Organization
46 N41e5bc87c5bc449a89cc717362916444 schema:volumeNumber 44
47 rdf:type schema:PublicationVolume
48 N431eb7b8587e4507badcd473434ed766 schema:name readcube_id
49 schema:value 5d28b1a3815e8bd49f2e31ec29d992724e61b4d323e980f88ca927dc5e3c439c
50 rdf:type schema:PropertyValue
51 N7ace7d01bce240b48bf67bfa33ac5c4d schema:name dimensions_id
52 schema:value pub.1019552149
53 rdf:type schema:PropertyValue
54 N82cdfa0b61be48749fd6d691bf3980b5 rdf:first sg:person.01361300117.93
55 rdf:rest N18af2e3fa55d4d818fc899a993235029
56 N97d7e52b8c424bf0af90a081dee68252 schema:issueNumber 4
57 rdf:type schema:PublicationIssue
58 Nc7b8bee2187345e985cde92b8498e22e rdf:first sg:person.01116003736.49
59 rdf:rest Nd86ee3ee638246b6b51d0b8cd19ebf23
60 Nd74a129346754a339ff7f8d4dde891d3 rdf:first sg:person.0752475435.54
61 rdf:rest Nc7b8bee2187345e985cde92b8498e22e
62 Nd86ee3ee638246b6b51d0b8cd19ebf23 rdf:first sg:person.01231212564.93
63 rdf:rest N82cdfa0b61be48749fd6d691bf3980b5
64 Ndf7d909c943d4c939abe649f1d04c47b schema:name doi
65 schema:value 10.1007/s12600-016-0548-8
66 rdf:type schema:PropertyValue
67 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
68 schema:name Biological Sciences
69 rdf:type schema:DefinedTerm
70 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
71 schema:name Genetics
72 rdf:type schema:DefinedTerm
73 sg:journal.1121015 schema:issn 0334-2123
74 1876-7184
75 schema:name Phytoparasitica
76 rdf:type schema:Periodical
77 sg:person.01116003736.49 schema:affiliation https://www.grid.ac/institutes/grid.55614.33
78 schema:familyName Bhagwat
79 schema:givenName Basdeo
80 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01116003736.49
81 rdf:type schema:Person
82 sg:person.01231212564.93 schema:affiliation https://www.grid.ac/institutes/grid.55614.33
83 schema:familyName Bernardy
84 schema:givenName Mike
85 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01231212564.93
86 rdf:type schema:Person
87 sg:person.01314560762.73 schema:affiliation https://www.grid.ac/institutes/grid.144022.1
88 schema:familyName Cheng
89 schema:givenName Zhihui
90 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01314560762.73
91 rdf:type schema:Person
92 sg:person.01361300117.93 schema:affiliation https://www.grid.ac/institutes/grid.55614.33
93 schema:familyName Wiersma
94 schema:givenName Paul A.
95 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01361300117.93
96 rdf:type schema:Person
97 sg:person.0623725341.50 schema:affiliation https://www.grid.ac/institutes/grid.55614.33
98 schema:familyName Xiang
99 schema:givenName Yu
100 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0623725341.50
101 rdf:type schema:Person
102 sg:person.0752475435.54 schema:affiliation https://www.grid.ac/institutes/grid.55614.33
103 schema:familyName Su
104 schema:givenName Li
105 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0752475435.54
106 rdf:type schema:Person
107 sg:pub.10.1007/s00705-013-1698-3 schema:sameAs https://app.dimensions.ai/details/publication/pub.1010448863
108 https://doi.org/10.1007/s00705-013-1698-3
109 rdf:type schema:CreativeWork
110 sg:pub.10.1007/s00705-014-2031-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1002381463
111 https://doi.org/10.1007/s00705-014-2031-5
112 rdf:type schema:CreativeWork
113 sg:pub.10.1007/s007050050690 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020881134
114 https://doi.org/10.1007/s007050050690
115 rdf:type schema:CreativeWork
116 https://doi.org/10.1093/molbev/mst197 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001444669
117 rdf:type schema:CreativeWork
118 https://doi.org/10.1093/nar/gkj023 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016747792
119 rdf:type schema:CreativeWork
120 https://doi.org/10.1093/ve/vev003 schema:sameAs https://app.dimensions.ai/details/publication/pub.1034021905
121 rdf:type schema:CreativeWork
122 https://doi.org/10.1094/pd-77-0271 schema:sameAs https://app.dimensions.ai/details/publication/pub.1060086001
123 rdf:type schema:CreativeWork
124 https://doi.org/10.1094/pdis-01-14-0058-pdn schema:sameAs https://app.dimensions.ai/details/publication/pub.1060088504
125 rdf:type schema:CreativeWork
126 https://doi.org/10.1094/phyto-69-854 schema:sameAs https://app.dimensions.ai/details/publication/pub.1060105858
127 rdf:type schema:CreativeWork
128 https://doi.org/10.1094/phyto-96-0137 schema:sameAs https://app.dimensions.ai/details/publication/pub.1060100201
129 rdf:type schema:CreativeWork
130 https://doi.org/10.1111/jph.12121 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050971321
131 rdf:type schema:CreativeWork
132 https://doi.org/10.1146/annurev.phyto.45.062806.094401 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014409204
133 rdf:type schema:CreativeWork
134 https://doi.org/10.2144/000114133 schema:sameAs https://app.dimensions.ai/details/publication/pub.1029799849
135 rdf:type schema:CreativeWork
136 https://www.grid.ac/institutes/grid.144022.1 schema:alternateName North West Agriculture and Forestry University
137 schema:name College of Horticulture, Northwest A&F University, 712100, Yangling, Shaanxi, China
138 rdf:type schema:Organization
139 https://www.grid.ac/institutes/grid.55614.33 schema:alternateName Agriculture and Agriculture-Food Canada
140 schema:name Agriculture and Agri-Food Canada, Summerland Research and Development Centre, V0H 1Z0, Summerland, BC, Canada
141 College of Horticulture, Northwest A&F University, 712100, Yangling, Shaanxi, China
142 rdf:type schema:Organization
 




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


...