Item talk:Q266619
From geokb
{
"USGS Publications Warehouse": {
"@context": "https://schema.org",
"@type": "Article",
"additionalType": "Journal Article",
"name": "Evolutionary dynamics of Newcastle disease virus",
"identifier": [
{
"@type": "PropertyValue",
"propertyID": "USGS Publications Warehouse IndexID",
"value": "70036964",
"url": "https://pubs.usgs.gov/publication/70036964"
},
{
"@type": "PropertyValue",
"propertyID": "USGS Publications Warehouse Internal ID",
"value": 70036964
},
{
"@type": "PropertyValue",
"propertyID": "DOI",
"value": "10.1016/j.virol.2009.05.033",
"url": "https://doi.org/10.1016/j.virol.2009.05.033"
},
{
"@type": "PropertyValue",
"propertyID": "ISSN",
"value": "00426822"
}
],
"journal": {
"@type": "Periodical",
"name": "Virology",
"volumeNumber": "391",
"issueNumber": "1"
},
"inLanguage": "en",
"isPartOf": [
{
"@type": "CreativeWorkSeries",
"name": "Virology"
}
],
"datePublished": "2009",
"dateModified": "2023-10-16",
"abstract": "A comprehensive dataset of NDV genome sequences was evaluated using bioinformatics to characterize the evolutionary forces affecting NDV genomes. Despite evidence of recombination in most genes, only one event in the fusion gene of genotype V viruses produced evolutionarily viable progenies. The codon-associated rate of change for the six NDV proteins revealed that the highest rate of change occurred at the fusion protein. All proteins were under strong purifying (negative) selection; the fusion protein displayed the highest number of amino acids under positive selection. Regardless of the phylogenetic grouping or the level of virulence, the cleavage site motif was highly conserved implying that mutations at this site that result in changes of virulence may not be favored. The coding sequence of the fusion gene and the genomes of viruses from wild birds displayed higher yearly rates of change in virulent viruses than in viruses of low virulence, suggesting that an increase in virulence may accelerate the rate of NDV evolution. ?? 2009 Elsevier Inc.",
"description": "9 p.",
"publisher": {
"@type": "Organization",
"name": "Elsevier"
},
"author": [
{
"@type": "Person",
"name": "Ip, Hon S.",
"givenName": "Hon S.",
"familyName": "Ip",
"identifier": {
"@type": "PropertyValue",
"propertyID": "ORCID",
"value": "0000-0003-4844-7533",
"url": "https://orcid.org/0000-0003-4844-7533"
}
},
{
"@type": "Person",
"name": "Afonso, C.L.",
"givenName": "C.L.",
"familyName": "Afonso"
},
{
"@type": "Person",
"name": "Kim, L.M.",
"givenName": "L.M.",
"familyName": "Kim"
},
{
"@type": "Person",
"name": "Miller, P.J.",
"givenName": "P.J.",
"familyName": "Miller"
}
],
"funder": [
{
"@type": "Organization",
"name": "National Wildlife Health Center",
"url": "https://www.usgs.gov/centers/nwhc"
}
]
},
"OpenAlex": {
"_id": "https://openalex.org/w2017081871",
"abstract_inverted_index": {
"A": [
0
],
"comprehensive": [
1
],
"dataset": [
2
],
"of": [
3,
21,
33,
44,
56,
78,
85,
92,
111,
120,
127,
136,
144,
157
],
"NDV": [
4,
17,
49,
158
],
"genome": [
5
],
"sequences": [
6
],
"was": [
7,
98
],
"evaluated": [
8
],
"using": [
9
],
"bioinformatics": [
10
],
"to": [
11
],
"characterize": [
12
],
"the": [
13,
30,
47,
53,
60,
71,
75,
86,
90,
94,
121,
125,
155
],
"evolutionary": [
14
],
"forces": [
15
],
"affecting": [
16
],
"genomes.": [
18
],
"Despite": [
19
],
"evidence": [
20
],
"recombination": [
22
],
"in": [
23,
29,
109,
138,
142,
151
],
"most": [
24
],
"genes,": [
25
],
"only": [
26
],
"one": [
27
],
"event": [
28
],
"fusion": [
31,
61,
72,
122
],
"gene": [
32,
123
],
"genotype": [
34
],
"V": [
35
],
"viruses": [
36,
128,
140,
143
],
"produced": [
37
],
"evolutionarily": [
38
],
"viable": [
39
],
"progenies.": [
40
],
"The": [
41,
117
],
"codon-associated": [
42
],
"rate": [
43,
55,
156
],
"change": [
45,
57,
137
],
"for": [
46
],
"six": [
48
],
"proteins": [
50,
64
],
"revealed": [
51
],
"that": [
52,
102,
107,
148
],
"highest": [
54,
76
],
"occurred": [
58
],
"at": [
59,
104
],
"protein.": [
62
],
"All": [
63
],
"were": [
65
],
"under": [
66,
81
],
"strong": [
67
],
"purifying": [
68
],
"(negative)": [
69
],
"selection;": [
70
],
"protein": [
73
],
"displayed": [
74,
132
],
"number": [
77
],
"amino": [
79
],
"acids": [
80
],
"positive": [
82
],
"selection.": [
83
],
"Regardless": [
84
],
"phylogenetic": [
87
],
"grouping": [
88
],
"or": [
89
],
"level": [
91
],
"virulence,": [
93,
146
],
"cleavage": [
95
],
"site": [
96,
106
],
"motif": [
97
],
"highly": [
99
],
"conserved": [
100
],
"implying": [
101
],
"mutations": [
103
],
"this": [
105
],
"result": [
108
],
"changes": [
110
],
"virulence": [
112,
152
],
"may": [
113,
153
],
"not": [
114
],
"be": [
115
],
"favored.": [
116
],
"coding": [
118
],
"sequence": [
119
],
"and": [
124
],
"genomes": [
126
],
"from": [
129
],
"wild": [
130
],
"birds": [
131
],
"higher": [
133
],
"yearly": [
134
],
"rates": [
135
],
"virulent": [
139
],
"than": [
141
],
"low": [
145
],
"suggesting": [
147
],
"an": [
149
],
"increase": [
150
],
"accelerate": [
154
],
"evolution.": [
159
]
},
"apc_list": {
"value": 3040,
"currency": "USD",
"value_usd": 3040,
"provenance": "doaj"
},
"apc_paid": null,
"authorships": [
{
"author_position": "first",
"author": {
"id": "https://openalex.org/A5045204229",
"display_name": "Patti J. Miller",
"orcid": null
},
"institutions": [
{
"id": "https://openalex.org/I4210141533",
"display_name": "U.S. National Poultry Research Center",
"ror": "https://ror.org/03sc3bx43",
"country_code": "US",
"type": "facility",
"lineage": [
"https://openalex.org/I1312222531",
"https://openalex.org/I1336096307",
"https://openalex.org/I4210122704",
"https://openalex.org/I4210141533"
]
}
],
"countries": [
"US"
],
"is_corresponding": false,
"raw_author_name": "Patti J Miller",
"raw_affiliation_strings": [
"Southeast Poultry Research Laboratories, USDA ARS, Southeast Poultry Research Laboratory, Athens, GA 30605, USA."
],
"affiliations": [
{
"raw_affiliation_string": "Southeast Poultry Research Laboratories, USDA ARS, Southeast Poultry Research Laboratory, Athens, GA 30605, USA.",
"institution_ids": [
"https://openalex.org/I4210141533"
]
}
]
},
{
"author_position": "middle",
"author": {
"id": "https://openalex.org/A5068245398",
"display_name": "L. Mia Kim",
"orcid": null
},
"institutions": [],
"countries": [],
"is_corresponding": false,
"raw_author_name": "L Mia Kim",
"raw_affiliation_strings": [],
"affiliations": []
},
{
"author_position": "middle",
"author": {
"id": "https://openalex.org/A5084311164",
"display_name": "Hon S. Ip",
"orcid": "https://orcid.org/0000-0003-4844-7533"
},
"institutions": [],
"countries": [],
"is_corresponding": false,
"raw_author_name": "Hon S Ip",
"raw_affiliation_strings": [],
"affiliations": []
},
{
"author_position": "last",
"author": {
"id": "https://openalex.org/A5088183327",
"display_name": "Claudio L. Afonso",
"orcid": "https://orcid.org/0000-0001-5699-4743"
},
"institutions": [],
"countries": [],
"is_corresponding": false,
"raw_author_name": "Claudio L Afonso",
"raw_affiliation_strings": [],
"affiliations": []
}
],
"best_oa_location": {
"is_oa": true,
"landing_page_url": "https://doi.org/10.1016/j.virol.2009.05.033",
"pdf_url": null,
"source": {
"id": "https://openalex.org/S6147291",
"display_name": "Virology",
"issn_l": "0042-6822",
"issn": [
"0042-6822",
"1089-862X",
"1096-0341"
],
"is_oa": false,
"is_in_doaj": false,
"is_core": true,
"host_organization": "https://openalex.org/P4310320990",
"host_organization_name": "Elsevier BV",
"host_organization_lineage": [
"https://openalex.org/P4310320990"
],
"host_organization_lineage_names": [
"Elsevier BV"
],
"type": "journal"
},
"license": "publisher-specific-oa",
"license_id": "https://openalex.org/licenses/publisher-specific-oa",
"version": "publishedVersion",
"is_accepted": true,
"is_published": true
},
"biblio": {
"volume": "391",
"issue": "1",
"first_page": "64",
"last_page": "72"
},
"citation_normalized_percentile": {
"value": 0.950558,
"is_in_top_1_percent": false,
"is_in_top_10_percent": true
},
"cited_by_api_url": "https://api.openalex.org/works?filter=cites:W2017081871",
"cited_by_count": 163,
"cited_by_percentile_year": {
"min": 98,
"max": 99
},
"concepts": [
{
"id": "https://openalex.org/C60987743",
"wikidata": "https://www.wikidata.org/wiki/Q1460232",
"display_name": "Virulence",
"level": 3,
"score": 0.9241153
},
{
"id": "https://openalex.org/C86803240",
"wikidata": "https://www.wikidata.org/wiki/Q420",
"display_name": "Biology",
"level": 0,
"score": 0.90924037
},
{
"id": "https://openalex.org/C2778116459",
"wikidata": "https://www.wikidata.org/wiki/Q327082",
"display_name": "Newcastle disease",
"level": 3,
"score": 0.7545665
},
{
"id": "https://openalex.org/C141231307",
"wikidata": "https://www.wikidata.org/wiki/Q7020",
"display_name": "Genome",
"level": 3,
"score": 0.7542443
},
{
"id": "https://openalex.org/C54355233",
"wikidata": "https://www.wikidata.org/wiki/Q7162",
"display_name": "Genetics",
"level": 1,
"score": 0.6990121
},
{
"id": "https://openalex.org/C104317684",
"wikidata": "https://www.wikidata.org/wiki/Q7187",
"display_name": "Gene",
"level": 2,
"score": 0.6776471
},
{
"id": "https://openalex.org/C193252679",
"wikidata": "https://www.wikidata.org/wiki/Q242125",
"display_name": "Phylogenetic tree",
"level": 3,
"score": 0.6152585
},
{
"id": "https://openalex.org/C2522874641",
"wikidata": "https://www.wikidata.org/wiki/Q808",
"display_name": "Virus",
"level": 2,
"score": 0.56945425
},
{
"id": "https://openalex.org/C7386963",
"wikidata": "https://www.wikidata.org/wiki/Q3954859",
"display_name": "Negative selection",
"level": 4,
"score": 0.53838885
},
{
"id": "https://openalex.org/C90132467",
"wikidata": "https://www.wikidata.org/wiki/Q171184",
"display_name": "Phylogenetics",
"level": 3,
"score": 0.46886164
},
{
"id": "https://openalex.org/C98638677",
"wikidata": "https://www.wikidata.org/wiki/Q2067051",
"display_name": "Mutation rate",
"level": 3,
"score": 0.4180439
},
{
"id": "https://openalex.org/C159047783",
"wikidata": "https://www.wikidata.org/wiki/Q7215",
"display_name": "Virology",
"level": 1,
"score": 0.38215902
}
],
"corresponding_author_ids": [],
"corresponding_institution_ids": [],
"countries_distinct_count": 1,
"counts_by_year": [
{
"year": 2024,
"cited_by_count": 4
},
{
"year": 2023,
"cited_by_count": 7
},
{
"year": 2022,
"cited_by_count": 5
},
{
"year": 2021,
"cited_by_count": 13
},
{
"year": 2020,
"cited_by_count": 14
},
{
"year": 2019,
"cited_by_count": 13
},
{
"year": 2018,
"cited_by_count": 11
},
{
"year": 2017,
"cited_by_count": 12
},
{
"year": 2016,
"cited_by_count": 22
},
{
"year": 2015,
"cited_by_count": 7
},
{
"year": 2014,
"cited_by_count": 11
},
{
"year": 2013,
"cited_by_count": 14
},
{
"year": 2012,
"cited_by_count": 9
}
],
"created_date": "2016-06-24",
"datasets": [],
"display_name": "Evolutionary dynamics of Newcastle disease virus",
"doi": "https://doi.org/10.1016/j.virol.2009.05.033",
"fulltext_origin": "ngrams",
"fwci": 5.924,
"grants": [],
"has_fulltext": true,
"id": "https://openalex.org/W2017081871",
"ids": {
"openalex": "https://openalex.org/W2017081871",
"doi": "https://doi.org/10.1016/j.virol.2009.05.033",
"mag": "2017081871",
"pmid": "https://pubmed.ncbi.nlm.nih.gov/19564032"
},
"indexed_in": [
"crossref",
"pubmed"
],
"institutions_distinct_count": 1,
"is_paratext": false,
"is_retracted": false,
"keywords": [
{
"id": "https://openalex.org/keywords/negative-selection",
"display_name": "Negative selection",
"score": 0.53838885
},
{
"id": "https://openalex.org/keywords/newcastle-disease",
"display_name": "Newcastle Disease",
"score": 0.512643
}
],
"language": "en",
"locations": [
{
"is_oa": true,
"landing_page_url": "https://doi.org/10.1016/j.virol.2009.05.033",
"pdf_url": null,
"source": {
"id": "https://openalex.org/S6147291",
"display_name": "Virology",
"issn_l": "0042-6822",
"issn": [
"0042-6822",
"1089-862X",
"1096-0341"
],
"is_oa": false,
"is_in_doaj": false,
"is_core": true,
"host_organization": "https://openalex.org/P4310320990",
"host_organization_name": "Elsevier BV",
"host_organization_lineage": [
"https://openalex.org/P4310320990"
],
"host_organization_lineage_names": [
"Elsevier BV"
],
"type": "journal"
},
"license": "publisher-specific-oa",
"license_id": "https://openalex.org/licenses/publisher-specific-oa",
"version": "publishedVersion",
"is_accepted": true,
"is_published": true
},
{
"is_oa": false,
"landing_page_url": "https://pubmed.ncbi.nlm.nih.gov/19564032",
"pdf_url": null,
"source": {
"id": "https://openalex.org/S4306525036",
"display_name": "PubMed",
"issn_l": null,
"issn": null,
"is_oa": false,
"is_in_doaj": false,
"is_core": false,
"host_organization": "https://openalex.org/I1299303238",
"host_organization_name": "National Institutes of Health",
"host_organization_lineage": [
"https://openalex.org/I1299303238"
],
"host_organization_lineage_names": [
"National Institutes of Health"
],
"type": "repository"
},
"license": null,
"license_id": null,
"version": null,
"is_accepted": false,
"is_published": false
}
],
"locations_count": 2,
"mesh": [
{
"descriptor_ui": "D019143",
"descriptor_name": "Evolution, Molecular",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": true
},
{
"descriptor_ui": "D016679",
"descriptor_name": "Genome, Viral",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": true
},
{
"descriptor_ui": "D009522",
"descriptor_name": "Newcastle disease virus",
"qualifier_ui": "Q000235",
"qualifier_name": "genetics",
"is_major_topic": true
},
{
"descriptor_ui": "D014760",
"descriptor_name": "Viral Fusion Proteins",
"qualifier_ui": "Q000235",
"qualifier_name": "genetics",
"is_major_topic": true
},
{
"descriptor_ui": "D009522",
"descriptor_name": "Newcastle disease virus",
"qualifier_ui": "Q000472",
"qualifier_name": "pathogenicity",
"is_major_topic": false
},
{
"descriptor_ui": "D009522",
"descriptor_name": "Newcastle disease virus",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": false
},
{
"descriptor_ui": "D010802",
"descriptor_name": "Phylogeny",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": false
},
{
"descriptor_ui": "D012367",
"descriptor_name": "RNA, Viral",
"qualifier_ui": "Q000235",
"qualifier_name": "genetics",
"is_major_topic": false
},
{
"descriptor_ui": "D012367",
"descriptor_name": "RNA, Viral",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": false
},
{
"descriptor_ui": "D011995",
"descriptor_name": "Recombination, Genetic",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": false
},
{
"descriptor_ui": "D016415",
"descriptor_name": "Sequence Alignment",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": false
},
{
"descriptor_ui": "D017423",
"descriptor_name": "Sequence Analysis, RNA",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": false
},
{
"descriptor_ui": "D014760",
"descriptor_name": "Viral Fusion Proteins",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": false
},
{
"descriptor_ui": "D014774",
"descriptor_name": "Virulence",
"qualifier_ui": "Q000235",
"qualifier_name": "genetics",
"is_major_topic": false
},
{
"descriptor_ui": "D014774",
"descriptor_name": "Virulence",
"qualifier_ui": "",
"qualifier_name": null,
"is_major_topic": false
}
],
"ngrams_url": "https://api.openalex.org/works/W2017081871/ngrams",
"open_access": {
"is_oa": true,
"oa_status": "bronze",
"oa_url": "https://doi.org/10.1016/j.virol.2009.05.033",
"any_repository_has_fulltext": false
},
"primary_location": {
"is_oa": true,
"landing_page_url": "https://doi.org/10.1016/j.virol.2009.05.033",
"pdf_url": null,
"source": {
"id": "https://openalex.org/S6147291",
"display_name": "Virology",
"issn_l": "0042-6822",
"issn": [
"0042-6822",
"1089-862X",
"1096-0341"
],
"is_oa": false,
"is_in_doaj": false,
"is_core": true,
"host_organization": "https://openalex.org/P4310320990",
"host_organization_name": "Elsevier BV",
"host_organization_lineage": [
"https://openalex.org/P4310320990"
],
"host_organization_lineage_names": [
"Elsevier BV"
],
"type": "journal"
},
"license": "publisher-specific-oa",
"license_id": "https://openalex.org/licenses/publisher-specific-oa",
"version": "publishedVersion",
"is_accepted": true,
"is_published": true
},
"primary_topic": {
"id": "https://openalex.org/T11135",
"display_name": "Paramyxovirus Infections and Epidemiology",
"score": 0.9999,
"subfield": {
"id": "https://openalex.org/subfields/2713",
"display_name": "Epidemiology"
},
"field": {
"id": "https://openalex.org/fields/27",
"display_name": "Medicine"
},
"domain": {
"id": "https://openalex.org/domains/4",
"display_name": "Health Sciences"
}
},
"publication_date": "2009-08-01",
"publication_year": 2009,
"referenced_works": [
"https://openalex.org/W108781493",
"https://openalex.org/W1483247593",
"https://openalex.org/W1555986815",
"https://openalex.org/W170001421",
"https://openalex.org/W1832347372",
"https://openalex.org/W1832626394",
"https://openalex.org/W1907806866",
"https://openalex.org/W1957495804",
"https://openalex.org/W1973667633",
"https://openalex.org/W1975941134",
"https://openalex.org/W1980930281",
"https://openalex.org/W1981662601",
"https://openalex.org/W1990096140",
"https://openalex.org/W1994825345",
"https://openalex.org/W2009596137",
"https://openalex.org/W2022527347",
"https://openalex.org/W2023422732",
"https://openalex.org/W2029549914",
"https://openalex.org/W2046790347",
"https://openalex.org/W2055298722",
"https://openalex.org/W2063539859",
"https://openalex.org/W2065578002",
"https://openalex.org/W2067063775",
"https://openalex.org/W2082928585",
"https://openalex.org/W2087127695",
"https://openalex.org/W2091181646",
"https://openalex.org/W2095886196",
"https://openalex.org/W2103546861",
"https://openalex.org/W2104749109",
"https://openalex.org/W2106882534",
"https://openalex.org/W2110835349",
"https://openalex.org/W2114643569",
"https://openalex.org/W2117475130",
"https://openalex.org/W2118588845",
"https://openalex.org/W2119641173",
"https://openalex.org/W2126226517",
"https://openalex.org/W2129370603",
"https://openalex.org/W2132926880",
"https://openalex.org/W2136511801",
"https://openalex.org/W2138178197",
"https://openalex.org/W2143119188",
"https://openalex.org/W2143334889",
"https://openalex.org/W2144368480",
"https://openalex.org/W2146396346",
"https://openalex.org/W2155761127",
"https://openalex.org/W2160364329",
"https://openalex.org/W2165892911",
"https://openalex.org/W2169672695",
"https://openalex.org/W2171022989",
"https://openalex.org/W4240620472"
],
"referenced_works_count": 50,
"related_works": [
"https://openalex.org/W4212879542",
"https://openalex.org/W4205148382",
"https://openalex.org/W2378388138",
"https://openalex.org/W2194295138",
"https://openalex.org/W2114009169",
"https://openalex.org/W2077682360",
"https://openalex.org/W2029108046",
"https://openalex.org/W1979172052",
"https://openalex.org/W1668453742",
"https://openalex.org/W1506242385"
],
"sustainable_development_goals": [],
"title": "Evolutionary dynamics of Newcastle disease virus",
"topics": [
{
"id": "https://openalex.org/T11135",
"display_name": "Paramyxovirus Infections and Epidemiology",
"score": 0.9999,
"subfield": {
"id": "https://openalex.org/subfields/2713",
"display_name": "Epidemiology"
},
"field": {
"id": "https://openalex.org/fields/27",
"display_name": "Medicine"
},
"domain": {
"id": "https://openalex.org/domains/4",
"display_name": "Health Sciences"
}
},
{
"id": "https://openalex.org/T11495",
"display_name": "Viral Diseases in Livestock and Poultry",
"score": 0.9966,
"subfield": {
"id": "https://openalex.org/subfields/1103",
"display_name": "Animal Science and Zoology"
},
"field": {
"id": "https://openalex.org/fields/11",
"display_name": "Agricultural and Biological Sciences"
},
"domain": {
"id": "https://openalex.org/domains/1",
"display_name": "Life Sciences"
}
},
{
"id": "https://openalex.org/T10494",
"display_name": "Viral RNA Silencing and Plant Immunity",
"score": 0.9928,
"subfield": {
"id": "https://openalex.org/subfields/1110",
"display_name": "Plant Science"
},
"field": {
"id": "https://openalex.org/fields/11",
"display_name": "Agricultural and Biological Sciences"
},
"domain": {
"id": "https://openalex.org/domains/1",
"display_name": "Life Sciences"
}
}
],
"type": "article",
"type_crossref": "journal-article",
"updated_date": "2024-08-13T07:31:14.276990",
"versions": []
}
}
