The complete genome sequence of a Passion fruit woodiness virus isolate from Australia determined using deep sequencing, and its relationship ... View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2011-03

AUTHORS

Stephen J. Wylie, Michael G. K. Jones

ABSTRACT

The complete genome sequence (9,858 nucleotides) of the Passion fruit woodiness virus isolate MU-2 was determined using Illumina sequencing. The large open reading frame (ORF) encodes a polyprotein containing 3,086 amino acids, with an AUG start codon and UAA stop codon. The polyprotein yielded 11 proteins (P1, HC-Pro, P3, PIPO, 6K1, CI, 6K2, NIa-VPg, NIa-Pro, NIb and CP). Putative cleavage sites between them were identified by sequence comparison to those of other known potyviruses. Accuracy of the genome sequence information was provided by 42-1691-fold sequence coverage, and viral RNA accounted for 7.38% of total polyadenylated RNA from the host plant. More... »

PAGES

479-482

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s00705-010-0845-3

DOI

http://dx.doi.org/10.1007/s00705-010-0845-3

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1033611054

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/21076846


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": "Australia", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Cluster Analysis", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Genome, Viral", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "High-Throughput Nucleotide Sequencing", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Molecular Sequence Data", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Phylogeny", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Polyproteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Potyvirus", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "RNA, Viral", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Sequence Analysis, DNA", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Viral Proteins", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Murdoch University", 
          "id": "https://www.grid.ac/institutes/grid.1025.6", 
          "name": [
            "Plant Virus Section, Western Australian State Agricultural Biotechnology Centre, Murdoch University, 6150, Perth, WA, Australia"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Wylie", 
        "givenName": "Stephen J.", 
        "id": "sg:person.01220764536.14", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01220764536.14"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Murdoch University", 
          "id": "https://www.grid.ac/institutes/grid.1025.6", 
          "name": [
            "Plant Virus Section, Western Australian State Agricultural Biotechnology Centre, Murdoch University, 6150, Perth, WA, Australia"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Jones", 
        "givenName": "Michael G. K.", 
        "id": "sg:person.016427007024.24", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016427007024.24"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.1016/s0166-0934(96)02103-9", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001542724"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1071/ap97026", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1006003807", 
          "https://doi.org/10.1071/ap97026"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf01310827", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1014212617", 
          "https://doi.org/10.1007/bf01310827"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf01310827", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1014212617", 
          "https://doi.org/10.1007/bf01310827"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0800468105", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017705749"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1365-3059.2007.01653.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1026757070"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00705-006-0755-6", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028074379", 
          "https://doi.org/10.1007/s00705-006-0755-6"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00705-006-0755-6", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028074379", 
          "https://doi.org/10.1007/s00705-006-0755-6"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1365-294x.2009.04470.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1039638344"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1365-294x.2009.04470.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1039638344"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00705-004-0440-6", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1041246410", 
          "https://doi.org/10.1007/s00705-004-0440-6"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1146/annurev-phyto-073009-114404", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1042975156"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1371/journal.pone.0005683", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1048242989"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2011-03", 
    "datePublishedReg": "2011-03-01", 
    "description": "The complete genome sequence (9,858 nucleotides) of the Passion fruit woodiness virus isolate MU-2 was determined using Illumina sequencing. The large open reading frame (ORF) encodes a polyprotein containing 3,086 amino acids, with an AUG start codon and UAA stop codon. The polyprotein yielded 11 proteins (P1, HC-Pro, P3, PIPO, 6K1, CI, 6K2, NIa-VPg, NIa-Pro, NIb and CP). Putative cleavage sites between them were identified by sequence comparison to those of other known potyviruses. Accuracy of the genome sequence information was provided by 42-1691-fold sequence coverage, and viral RNA accounted for 7.38% of total polyadenylated RNA from the host plant.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1007/s00705-010-0845-3", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isFundedItemOf": [
      {
        "id": "sg:grant.3579700", 
        "type": "MonetaryGrant"
      }
    ], 
    "isPartOf": [
      {
        "id": "sg:journal.1083335", 
        "issn": [
          "0304-8608", 
          "1432-8798"
        ], 
        "name": "Archives of Virology", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "3", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "156"
      }
    ], 
    "name": "The complete genome sequence of a Passion fruit woodiness virus isolate from Australia determined using deep sequencing, and its relationship to other potyviruses", 
    "pagination": "479-482", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "a01c915ba33a5a13ebb66662b0f60f1e637540ddd67b4a2e63b9dbc1c792c421"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "21076846"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "7506870"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/s00705-010-0845-3"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1033611054"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1007/s00705-010-0845-3", 
      "https://app.dimensions.ai/details/publication/pub.1033611054"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-10T19:09", 
    "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_8678_00000514.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "http://link.springer.com/10.1007%2Fs00705-010-0845-3"
  }
]
 

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/s00705-010-0845-3'

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/s00705-010-0845-3'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/s00705-010-0845-3'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/s00705-010-0845-3'


 

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

156 TRIPLES      21 PREDICATES      50 URIs      32 LITERALS      20 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/s00705-010-0845-3 schema:about N1ec7c57f844c4e1a9ab79ece644f505c
2 N479d3bafa4a84eed8466433be8ec54fa
3 N499499f2881f43b3bb738a4ae840e4df
4 N55358d168ee84104a00d8966e0e004c4
5 N6caaafd3880a4a2bae4f13953f1f4f6d
6 N72dd1fb6ee604944a33db5092648026a
7 N777c42d3d0624f609b82084d61381fd7
8 N7b47eef790a24f539f406c5670ce4893
9 N8aaa9f28e0a94c589a740bcfb5f79658
10 Nbdb70356a59a4cb68408b84191320c7e
11 Nd87bef3950084602814aa3153a2a3bda
12 anzsrc-for:06
13 anzsrc-for:0604
14 schema:author Nc9ca49ef19f642eaac322b271bcf8971
15 schema:citation sg:pub.10.1007/bf01310827
16 sg:pub.10.1007/s00705-004-0440-6
17 sg:pub.10.1007/s00705-006-0755-6
18 sg:pub.10.1071/ap97026
19 https://doi.org/10.1016/s0166-0934(96)02103-9
20 https://doi.org/10.1073/pnas.0800468105
21 https://doi.org/10.1111/j.1365-294x.2009.04470.x
22 https://doi.org/10.1111/j.1365-3059.2007.01653.x
23 https://doi.org/10.1146/annurev-phyto-073009-114404
24 https://doi.org/10.1371/journal.pone.0005683
25 schema:datePublished 2011-03
26 schema:datePublishedReg 2011-03-01
27 schema:description The complete genome sequence (9,858 nucleotides) of the Passion fruit woodiness virus isolate MU-2 was determined using Illumina sequencing. The large open reading frame (ORF) encodes a polyprotein containing 3,086 amino acids, with an AUG start codon and UAA stop codon. The polyprotein yielded 11 proteins (P1, HC-Pro, P3, PIPO, 6K1, CI, 6K2, NIa-VPg, NIa-Pro, NIb and CP). Putative cleavage sites between them were identified by sequence comparison to those of other known potyviruses. Accuracy of the genome sequence information was provided by 42-1691-fold sequence coverage, and viral RNA accounted for 7.38% of total polyadenylated RNA from the host plant.
28 schema:genre research_article
29 schema:inLanguage en
30 schema:isAccessibleForFree false
31 schema:isPartOf N123ddc01c34e417d826ebbdb8f870902
32 N35199cf448454644890c5e7800daf30a
33 sg:journal.1083335
34 schema:name The complete genome sequence of a Passion fruit woodiness virus isolate from Australia determined using deep sequencing, and its relationship to other potyviruses
35 schema:pagination 479-482
36 schema:productId N2749cdd574a34408aa16d3bea5629f23
37 N2e2128e47d0b406ca204a704d7443e7e
38 N86e7d0118dd74ad7af68969f9cad0c8f
39 N8acdd87a66794808acad653f8f79a766
40 Nd656fee1de5945f097efcb01226132ef
41 schema:sameAs https://app.dimensions.ai/details/publication/pub.1033611054
42 https://doi.org/10.1007/s00705-010-0845-3
43 schema:sdDatePublished 2019-04-10T19:09
44 schema:sdLicense https://scigraph.springernature.com/explorer/license/
45 schema:sdPublisher N42a33fc193524c38a0050d35b3aa9286
46 schema:url http://link.springer.com/10.1007%2Fs00705-010-0845-3
47 sgo:license sg:explorer/license/
48 sgo:sdDataset articles
49 rdf:type schema:ScholarlyArticle
50 N123ddc01c34e417d826ebbdb8f870902 schema:issueNumber 3
51 rdf:type schema:PublicationIssue
52 N1ec7c57f844c4e1a9ab79ece644f505c schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
53 schema:name Potyvirus
54 rdf:type schema:DefinedTerm
55 N2749cdd574a34408aa16d3bea5629f23 schema:name nlm_unique_id
56 schema:value 7506870
57 rdf:type schema:PropertyValue
58 N2e2128e47d0b406ca204a704d7443e7e schema:name dimensions_id
59 schema:value pub.1033611054
60 rdf:type schema:PropertyValue
61 N35199cf448454644890c5e7800daf30a schema:volumeNumber 156
62 rdf:type schema:PublicationVolume
63 N42a33fc193524c38a0050d35b3aa9286 schema:name Springer Nature - SN SciGraph project
64 rdf:type schema:Organization
65 N42cf5dd2a7c843a4a0b602cd026f9d7c rdf:first sg:person.016427007024.24
66 rdf:rest rdf:nil
67 N479d3bafa4a84eed8466433be8ec54fa schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
68 schema:name RNA, Viral
69 rdf:type schema:DefinedTerm
70 N499499f2881f43b3bb738a4ae840e4df schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
71 schema:name Genome, Viral
72 rdf:type schema:DefinedTerm
73 N55358d168ee84104a00d8966e0e004c4 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
74 schema:name High-Throughput Nucleotide Sequencing
75 rdf:type schema:DefinedTerm
76 N6caaafd3880a4a2bae4f13953f1f4f6d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
77 schema:name Polyproteins
78 rdf:type schema:DefinedTerm
79 N72dd1fb6ee604944a33db5092648026a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
80 schema:name Australia
81 rdf:type schema:DefinedTerm
82 N777c42d3d0624f609b82084d61381fd7 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
83 schema:name Phylogeny
84 rdf:type schema:DefinedTerm
85 N7b47eef790a24f539f406c5670ce4893 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
86 schema:name Cluster Analysis
87 rdf:type schema:DefinedTerm
88 N86e7d0118dd74ad7af68969f9cad0c8f schema:name pubmed_id
89 schema:value 21076846
90 rdf:type schema:PropertyValue
91 N8aaa9f28e0a94c589a740bcfb5f79658 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
92 schema:name Molecular Sequence Data
93 rdf:type schema:DefinedTerm
94 N8acdd87a66794808acad653f8f79a766 schema:name doi
95 schema:value 10.1007/s00705-010-0845-3
96 rdf:type schema:PropertyValue
97 Nbdb70356a59a4cb68408b84191320c7e schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
98 schema:name Viral Proteins
99 rdf:type schema:DefinedTerm
100 Nc9ca49ef19f642eaac322b271bcf8971 rdf:first sg:person.01220764536.14
101 rdf:rest N42cf5dd2a7c843a4a0b602cd026f9d7c
102 Nd656fee1de5945f097efcb01226132ef schema:name readcube_id
103 schema:value a01c915ba33a5a13ebb66662b0f60f1e637540ddd67b4a2e63b9dbc1c792c421
104 rdf:type schema:PropertyValue
105 Nd87bef3950084602814aa3153a2a3bda schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
106 schema:name Sequence Analysis, DNA
107 rdf:type schema:DefinedTerm
108 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
109 schema:name Biological Sciences
110 rdf:type schema:DefinedTerm
111 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
112 schema:name Genetics
113 rdf:type schema:DefinedTerm
114 sg:grant.3579700 http://pending.schema.org/fundedItem sg:pub.10.1007/s00705-010-0845-3
115 rdf:type schema:MonetaryGrant
116 sg:journal.1083335 schema:issn 0304-8608
117 1432-8798
118 schema:name Archives of Virology
119 rdf:type schema:Periodical
120 sg:person.01220764536.14 schema:affiliation https://www.grid.ac/institutes/grid.1025.6
121 schema:familyName Wylie
122 schema:givenName Stephen J.
123 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01220764536.14
124 rdf:type schema:Person
125 sg:person.016427007024.24 schema:affiliation https://www.grid.ac/institutes/grid.1025.6
126 schema:familyName Jones
127 schema:givenName Michael G. K.
128 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016427007024.24
129 rdf:type schema:Person
130 sg:pub.10.1007/bf01310827 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014212617
131 https://doi.org/10.1007/bf01310827
132 rdf:type schema:CreativeWork
133 sg:pub.10.1007/s00705-004-0440-6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1041246410
134 https://doi.org/10.1007/s00705-004-0440-6
135 rdf:type schema:CreativeWork
136 sg:pub.10.1007/s00705-006-0755-6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028074379
137 https://doi.org/10.1007/s00705-006-0755-6
138 rdf:type schema:CreativeWork
139 sg:pub.10.1071/ap97026 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006003807
140 https://doi.org/10.1071/ap97026
141 rdf:type schema:CreativeWork
142 https://doi.org/10.1016/s0166-0934(96)02103-9 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001542724
143 rdf:type schema:CreativeWork
144 https://doi.org/10.1073/pnas.0800468105 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017705749
145 rdf:type schema:CreativeWork
146 https://doi.org/10.1111/j.1365-294x.2009.04470.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1039638344
147 rdf:type schema:CreativeWork
148 https://doi.org/10.1111/j.1365-3059.2007.01653.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1026757070
149 rdf:type schema:CreativeWork
150 https://doi.org/10.1146/annurev-phyto-073009-114404 schema:sameAs https://app.dimensions.ai/details/publication/pub.1042975156
151 rdf:type schema:CreativeWork
152 https://doi.org/10.1371/journal.pone.0005683 schema:sameAs https://app.dimensions.ai/details/publication/pub.1048242989
153 rdf:type schema:CreativeWork
154 https://www.grid.ac/institutes/grid.1025.6 schema:alternateName Murdoch University
155 schema:name Plant Virus Section, Western Australian State Agricultural Biotechnology Centre, Murdoch University, 6150, Perth, WA, Australia
156 rdf:type schema:Organization
 




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


...