{"id":"https://openalex.org/W4404774562","doi":"https://doi.org/10.3389/fdata.2024.1437580","title":"TSPDB: a curated resource of tailspike proteins with potential applications in phage research","display_name":"TSPDB: a curated resource of tailspike proteins with potential applications in phage research","publication_year":2024,"publication_date":"2024-11-27","ids":{"openalex":"https://openalex.org/W4404774562","doi":"https://doi.org/10.3389/fdata.2024.1437580","pmid":"https://pubmed.ncbi.nlm.nih.gov/39664372"},"language":"en","primary_location":{"id":"doi:10.3389/fdata.2024.1437580","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fdata.2024.1437580","pdf_url":"https://www.frontiersin.org/journals/big-data/articles/10.3389/fdata.2024.1437580/pdf","source":{"id":"https://openalex.org/S4210201220","display_name":"Frontiers in Big Data","issn_l":"2624-909X","issn":["2624-909X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Big Data","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.frontiersin.org/journals/big-data/articles/10.3389/fdata.2024.1437580/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5050626298","display_name":"Opeyemi U. Lawal","orcid":"https://orcid.org/0000-0003-2352-2832"},"institutions":[{"id":"https://openalex.org/I79817857","display_name":"University of Guelph","ror":"https://ror.org/01r7awg59","country_code":"CA","type":"education","lineage":["https://openalex.org/I79817857"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Opeyemi U. Lawal","raw_affiliation_strings":["Canadian Research Institute for Food Safety (CRIFS), Department of Food Science, University of Guelph, Guelph, ON, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Canadian Research Institute for Food Safety (CRIFS), Department of Food Science, University of Guelph, Guelph, ON, Canada","institution_ids":["https://openalex.org/I79817857"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021286386","display_name":"Lawrence Goodridge","orcid":"https://orcid.org/0009-0008-9965-3509"},"institutions":[{"id":"https://openalex.org/I79817857","display_name":"University of Guelph","ror":"https://ror.org/01r7awg59","country_code":"CA","type":"education","lineage":["https://openalex.org/I79817857"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Lawrence Goodridge","raw_affiliation_strings":["Canadian Research Institute for Food Safety (CRIFS), Department of Food Science, University of Guelph, Guelph, ON, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Canadian Research Institute for Food Safety (CRIFS), Department of Food Science, University of Guelph, Guelph, ON, Canada","institution_ids":["https://openalex.org/I79817857"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5021286386","https://openalex.org/A5050626298"],"corresponding_institution_ids":["https://openalex.org/I79817857"],"apc_list":{"value":1285,"currency":"USD","value_usd":1285},"apc_paid":{"value":1285,"currency":"USD","value_usd":1285},"fwci":0.9961,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.77856658,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":98},"biblio":{"volume":"7","issue":null,"first_page":"1437580","last_page":"1437580"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":1.0,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":1.0,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11688","display_name":"Microbial infections and disease research","score":0.9948999881744385,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9890999794006348,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6937082409858704},{"id":"https://openalex.org/keywords/capsid","display_name":"Capsid","score":0.6574185490608215},{"id":"https://openalex.org/keywords/bacteriophage","display_name":"Bacteriophage","score":0.5776784420013428},{"id":"https://openalex.org/keywords/archaea","display_name":"Archaea","score":0.5239695906639099},{"id":"https://openalex.org/keywords/phage-therapy","display_name":"Phage therapy","score":0.5045665502548218},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.43007394671440125},{"id":"https://openalex.org/keywords/bacterial-virus","display_name":"Bacterial virus","score":0.41994598507881165},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.41524431109428406},{"id":"https://openalex.org/keywords/host","display_name":"Host (biology)","score":0.4142771363258362},{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.4135509431362152},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.38740307092666626},{"id":"https://openalex.org/keywords/bacteria","display_name":"Bacteria","score":0.371087908744812},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3517197370529175},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2686711549758911},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.18290692567825317}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6937082409858704},{"id":"https://openalex.org/C202878990","wikidata":"https://www.wikidata.org/wiki/Q830465","display_name":"Capsid","level":3,"score":0.6574185490608215},{"id":"https://openalex.org/C2776441376","wikidata":"https://www.wikidata.org/wiki/Q165028","display_name":"Bacteriophage","level":4,"score":0.5776784420013428},{"id":"https://openalex.org/C550995028","wikidata":"https://www.wikidata.org/wiki/Q10872","display_name":"Archaea","level":3,"score":0.5239695906639099},{"id":"https://openalex.org/C2779256223","wikidata":"https://www.wikidata.org/wiki/Q611870","display_name":"Phage therapy","level":5,"score":0.5045665502548218},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.43007394671440125},{"id":"https://openalex.org/C2910978944","wikidata":"https://www.wikidata.org/wiki/Q165028","display_name":"Bacterial virus","level":5,"score":0.41994598507881165},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.41524431109428406},{"id":"https://openalex.org/C126831891","wikidata":"https://www.wikidata.org/wiki/Q221673","display_name":"Host (biology)","level":2,"score":0.4142771363258362},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.4135509431362152},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.38740307092666626},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.371087908744812},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3517197370529175},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2686711549758911},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.18290692567825317}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.3389/fdata.2024.1437580","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fdata.2024.1437580","pdf_url":"https://www.frontiersin.org/journals/big-data/articles/10.3389/fdata.2024.1437580/pdf","source":{"id":"https://openalex.org/S4210201220","display_name":"Frontiers in Big Data","issn_l":"2624-909X","issn":["2624-909X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Big Data","raw_type":"journal-article"},{"id":"pmid:39664372","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39664372","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":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in big data","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11631844","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11631844","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11631844/pdf/fdata-07-1437580.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Front Big Data","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:6ceb3f8370894e38951f9c90f4e7e96b","is_oa":false,"landing_page_url":"https://doaj.org/article/6ceb3f8370894e38951f9c90f4e7e96b","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in Big Data, Vol 7 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3389/fdata.2024.1437580","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fdata.2024.1437580","pdf_url":"https://www.frontiersin.org/journals/big-data/articles/10.3389/fdata.2024.1437580/pdf","source":{"id":"https://openalex.org/S4210201220","display_name":"Frontiers in Big Data","issn_l":"2624-909X","issn":["2624-909X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Big Data","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320326644","display_name":"Canada First Research Excellence Fund","ror":null},{"id":"https://openalex.org/F4320334593","display_name":"Natural Sciences and Engineering Research Council of Canada","ror":"https://ror.org/01h531d29"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4404774562.pdf"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1986708244","https://openalex.org/W1992128867","https://openalex.org/W2017104526","https://openalex.org/W2027826836","https://openalex.org/W2031611770","https://openalex.org/W2040416009","https://openalex.org/W2080140469","https://openalex.org/W2127774996","https://openalex.org/W2142678478","https://openalex.org/W2147958617","https://openalex.org/W2154984047","https://openalex.org/W2156125289","https://openalex.org/W2162494851","https://openalex.org/W2224169834","https://openalex.org/W2529838505","https://openalex.org/W2560057613","https://openalex.org/W2603734291","https://openalex.org/W2621042636","https://openalex.org/W2768649360","https://openalex.org/W2782455419","https://openalex.org/W2810844202","https://openalex.org/W2946145217","https://openalex.org/W2999406779","https://openalex.org/W3003557640","https://openalex.org/W3028566758","https://openalex.org/W3192943233","https://openalex.org/W3200231745","https://openalex.org/W4289274885","https://openalex.org/W4309506674","https://openalex.org/W4317506516","https://openalex.org/W4317716348","https://openalex.org/W4323364104","https://openalex.org/W4393308873"],"related_works":["https://openalex.org/W1998746424","https://openalex.org/W4399742720","https://openalex.org/W2938879245","https://openalex.org/W3182773564","https://openalex.org/W4221038313","https://openalex.org/W4220730427","https://openalex.org/W2890671410","https://openalex.org/W2381754483","https://openalex.org/W2181843415","https://openalex.org/W2902957791"],"abstract_inverted_index":{"Bacteriophages":[0],"(phages)":[1],"are":[2,21,34,158,283,338,351,1785],"viruses":[3],"that":[4,96,450,548,1033,1063,1076,1696,1704],"infect":[5],"and":[6,11,14,33,42,51,53,72,88,102,111,151,194,205,231,261,312,320,345,356,376,386,400,403,443,463,493,516,573,587,600,654,725,739,821,834,862,866,869,873,878,911,980,986,989,1007,1043,1082,1088,1124,1167,1234,1249,1288,1316,1335,1356,1376,1434,1499,1512,1600,1616,1619,1633,1649,1670,1682,1832,1860],"replicate":[7],"within":[8,1537],"host":[9,191,215,240,354,368,607,1312,1466],"bacteria":[10,260,267,1120,1178,1188,1311],"archaea":[12],"(Chatterjee":[13],"Duerkop,":[15],"2018;Dion":[16],"et":[17,30,57,60,81,108,148,154,178,208,234,269,272,296,299,328,331,334,359,391,425,446,489,496,584,611,634,714,717,743,746,882,887,992,1367,1396,1487,1515,1529],"al.,":[18,31,58,61,82,109,149,155,179,209,235,270,273,297,300,329,332,335,360,392,426,447,490,497,585,612,635,715,718,744,747,883,888,993,1368,1397,1488,1516,1530],"2020).":[19,180,427,719],"Phages":[20,157,181,275],"the":[22,27,46,69,118,126,132,141,218,224,239,249,255,262,286,292,379,411,415,451,500,505,555,564,595,602,641,650,659,680,705,726,734,766,797,829,832,848,942,965,1003,1049,1058,1070,1077,1135,1151,1161,1171,1183,1209,1223,1254,1259,1265,1268,1302,1327,1330,1371,1390,1404,1410,1414,1421,1442,1445,1453,1481,1533,1577,1624,1637,1650,1661,1674,1697,1722,1731,1749,1757,1788,1805,1808,1824,1846],"most":[23,1224],"abundant":[24],"entities":[25],"in":[26,68,77,125,200,378,470,485,511,570,627,629,657,750,756,770,781,803,816,996,1094,1150,1160,1258,1409,1441,1468,1524,1555,1586,1612,1628,1631,1647,1667,1692,1715,1721,1728,1769,1783],"biosphere":[28],"(Dion":[29,80,107,147,177],"2020)":[32],"distributed":[35,1437],"across":[36,1273,1438,1608,1813],"different":[37,482,1427],"biomes":[38],"populated":[39],"by":[40,289,305,538,691,1227,1527,1754],"bacterial":[41,225,250,325,434,854,1205,1241,1274,1814],"archaeal":[43],"hosts,":[44],"including":[45,1061],"gastrointestinal":[47],"tract":[48],"of":[49,74,92,117,129,134,173,186,213,220,258,265,341,364,381,384,410,504,522,557,563,594,643,652,663,683,707,711,723,728,736,753,768,800,831,836,850,859,930,975,1060,1097,1109,1131,1147,1163,1174,1267,1270,1286,1304,1329,1407,1416,1447,1462,1570,1584,1589,1626,1643,1652,1664,1706,1724,1763,1777,1807,1810,1830,1848,1856],"humans":[50],"animals,":[52],"oceanic":[54],"beds":[55],"(Chevallereau":[56],"2022;Clokie":[59],"2011).":[62],"They":[63],"play":[64],"a":[65,105,121,183,221,418,460,666,694,788,1095,1107,1154,1278,1284,1289,1294,1305,1343,1357,1459,1525,1587,1640,1818,1828,1833,1838,1849,1853],"vital":[66],"role":[67],"rapid":[70,798,1568],"evolution":[71],"adaptation":[73],"their":[75,346,367,841,1336],"hosts":[76],"various":[78,245,486,1609],"environments":[79],"2020).Phages":[83],"exhibit":[84,1318,1862],"high":[85,370,382,1320,1405,1864],"genomic,":[86],"morphological,":[87],"structural":[89,115],"diversity,":[90],"composed":[91],"DNA":[93,167],"or":[94,100,163,856,1030,1067,1712,1753],"RNA":[95],"can":[97,550],"be":[98,551,676,776,810,1734],"single-stranded":[99],"double-stranded":[101,166],"packaged":[103],"into":[104,1069,1565,1655],"capsid":[106,119],"2020;Fokine":[110,150],"Rossmann,":[112,152,206],"2014).":[113,301,393,748],"The":[114,474,720,876,1197,1346,1383,1401,1541,1557,1582],"form":[116],"was":[120,1018,1361,1387,1521,1535,1550],"major":[122],"feature":[123],"used":[124,552,777],"taxonomic":[127],"classification":[128],"phages":[130,169,176,242,290,772],"until":[131],"advent":[133],"whole-genome":[135],"sequencing,":[136],"which":[137,282,686,1025],"has":[138,456],"now":[139],"become":[140,1690],"gold":[142],"standard":[143],"for":[144,190,228,324,796,814,843,853,892,953,1040,1085,1176,1186,1338,1380,1494,1546,1567,1756,1797],"this":[145,784,958,1465,1653,1729,1822],"classification.":[146],"2014;Turner":[153],"2023).":[156,210,491],"broadly":[159],"classified":[160],"as":[161,254,348,459,645,847,903,1122,1509,1688,1709],"tailed":[162,168],"non-tailed,":[164],"with":[165,217,465,899,983,1106,1217,1363,1496,1504,1548,1766],"constituting":[170],"about":[171],"96%":[172],"all":[174],"known":[175,660],"possess":[182,396],"diverse":[184,844,1644],"array":[185],"tail":[187,343,1713],"structures":[188,703],"essential":[189],"recognition,":[192],"attachment,":[193],"penetration,":[195],"making":[196,321],"them":[197,322],"important":[198],"targets":[199],"phage":[201,318,342,416,453,567,615,708,817,851,1590,1613,1656,1770,1780],"therapy":[202,852],"research":[203],"(Fokine":[204],"2014;Gil":[207],"Phage":[211,394,506],"infection":[212,326,423,631],"its":[214],"begins":[216],"recognition":[219],"receptor":[222,421,501],"on":[223,248,536,921,1011,1560,1576,1746,1772,1787,1799],"cell":[226,251],"surface":[227],"attachment":[229],"(Dowah":[230],"Clokie,":[232],"2018;Latka":[233],"2017).":[236,274,636],"To":[237,1001,1263,1803],"penetrate":[238],"cell,":[241],"must":[243],"overcome":[244],"complex":[246],"barriers":[247],"wall,":[252],"such":[253,846,902,1121,1508],"outer":[256],"membrane":[257,420],"Gram-negative":[259,1166,1177,1240],"lipoteichoic":[263],"acids":[264],"Gram-positive":[266,1119,1168,1187,1215],"(Chen":[268,390],"2014;Latka":[271],"encode":[276],"virion-associated":[277],"carbohydrate-degrading":[278],"enzymes":[279],"called":[280,792],"depolymerases,":[281,303],"distinct":[284],"from":[285,934,941,964,1048,1118,1134,1201,1219,1239,1297,1420,1432,1449,1464,1841],"endolysins":[287],"produced":[288],"during":[291,422],"lysis":[293],"stage":[294],"(Knecht":[295,424],"2020;Yan":[298],"These":[302],"encoded":[304],"tailspike":[306,454,509,801,900,1764,1781],"protein":[307,455,510],"(TSP)":[308],"genes,":[309],"recognize,":[310],"bind,":[311],"degrade":[313],"cell-surface":[314],"associated":[315,898],"polysaccharides,":[316],"unmasking":[317],"receptors":[319],"accessible":[323,1745],"(Gil":[327],"2023;Greenfield":[330],"2019;Latka":[333],"2017).Tailspike":[336],"proteins":[337,802,838,1711,1765,1782],"integral":[339],"components":[340,409],"structures,":[344],"activities":[347],"polysaccharide":[349],"depolymerases":[350],"related":[352],"to":[353,373,413,432,437,528,543,553,592,606,648,672,679,699,778,825,828,839,924,1114,1140,1324,1426,1452,1479,1562,1622,1684,1737,1868],"specificity":[355],"infectivity":[357],"(Greenfield":[358],"2019).":[361],"A":[362,1760,1791],"hallmark":[363],"TSPs":[365,395,428,549,644,712,769,780,893,931,1132,1164,1175,1200,1218,1238,1257,1408,1419,1431,1448,1463,1585,1627,1645,1687,1708],"is":[366,1138,1179,1189,1492,1574,1702,1743,1794],"specificity,":[369],"thermostability,":[371],"resistance":[372,823],"protease":[374],"treatment,":[375],"stability":[377],"presence":[380,1583],"concentrations":[383,533],"urea":[385],"sodium":[387],"dodecyl":[388],"sulfate":[389],"carbohydrate":[397],"depolymerase":[398],"activity":[399,620],"recognize":[401],"capsule,":[402],"lipopolysaccharides":[404],"(LPS)":[405],"where":[406,1308,1532,1852],"they":[407,1689],"cleave":[408],"LPS":[412,461],"position":[414],"towards":[417],"secondary":[419],"have":[429,546,668,732,1719],"been":[430,669],"observed":[431],"decrease":[433],"viability,":[435],"leading":[436],"antimicrobial":[438,661,822],"applications.":[439],"For":[440,560,1429],"example,":[441,561,1430],"Ayariga":[442],"colleagues":[444,494],"(Ayariga":[445],"2021)":[448],"demonstrated":[449,517],"\u025b34":[452,475],"enzymatic":[457],"property":[458],"hydrolase":[462],"synergizes":[464],"Vero":[466],"Cell":[467],"culture":[468],"supernatant":[469],"killing":[471],"Salmonella":[472,483,532,1243,1450],"Newington.":[473],"TSP":[476,527,568,617,793,999,1013,1100,1104,1148,1271,1321,1333,1347,1474,1482,1726,1740,1811,1865],"also":[477,624,775,1458,1795],"showed":[478],"bactericidal":[479],"efficacy":[480],"against":[481,621],"serovars":[484],"matrices":[487],"(Ibrahim":[488],"Miletic":[492],"(Miletic":[495],"2016)":[498,1398],"expressed":[499],"binding":[502],"domain":[503],"P22":[507],"Gp9":[508,526],"plant":[512,558,608],"tissue":[513],"(Nicotiana":[514],"benthamiana),":[515],"that,":[518],"upon":[519],"oral":[520],"administration":[521],"lyophilized":[523],"leaves":[524],"expressing":[525],"newly":[529],"hatched":[530],"chickens,":[531],"were":[534,890,917,932,962,971,1046,1112,1214,1252,1349,1436,1457,1477,1592],"reduced":[535,577],"average":[537,1172,1184],"approximately":[539],"0.75":[540],"log":[541],"relative":[542],"controls.":[544],"Others":[545],"shown":[547],"control":[554,649],"growth":[556,651],"pathogens.":[559],"expression":[562],"Erwinia":[565],"spp.":[566],"DpoEa1h":[569],"transgenic":[571],"apple":[572],"pear":[574],"plants":[575],"significantly":[576],"fire":[578],"blight":[579],"(Erwinia":[580],"amylovora)":[581],"susceptibility,":[582],"(Malnoy":[583],"2005;Roach":[586],"Donovan,":[588,870],"2015)":[589],"likely":[590],"due":[591,678],"removal":[593],"main":[596],"virulence":[597,626],"factor":[598],"amylovoran":[599],"exposing":[601],"E.":[603],"amylovora":[604],"cells":[605],"defenses":[609],"(Kim":[610],"2004).":[613],"Finally,":[614],"LKA1":[616],"exhibits":[618],"disruptive":[619],"biofilms":[622],"while":[623,1182],"reducing":[625],"Pseudomonas":[628,1250],"an":[630,811,1538],"model":[632],"(Olszak":[633],"Collectively,":[637],"these":[638,837,1053,1665],"studies":[639],"demonstrate":[640],"utility":[642],"novel":[646],"antimicrobials":[647],"food":[653,1634],"plant-borne":[655],"pathogens":[656],"foods.Despite":[658],"applications":[662,1607,1768],"TSPs,":[664],"only":[665,761],"few":[667,1460],"fully":[670],"characterized":[671],"date.":[673],"This":[674,807,1072,1090,1281,1299,1490,1843],"could":[675,774,1026,1064],"partly":[677],"laborious":[681],"nature":[682],"detection":[684,752,799,1657],"techniques,":[685],"include":[687,1115,1685],"plaque":[688],"assays":[689],"followed":[690,1226],"examination":[692],"under":[693],"transmission":[695],"electron":[696],"microscope":[697],"(TEM)":[698],"identify":[700,779],""bulblike"":[701],"baseplate":[702],"at":[704,1192,1748,1801],"base":[706],"tails":[709],"indicative":[710],"(Bhandare":[713,1528],"2024;Knecht":[716],"decreasing":[721],"costs":[722],"sequencing":[724],"availability":[727],"improved":[729],"bioinformatics":[730,1501],"tools":[731,1502,1658],"facilitated":[733],"construction":[735],"large-scale":[737],"genome":[738],"metagenome":[740],"datasets":[741],"(Emond-Rheault":[742],"2017;Wattam":[745],"High-throughput":[749],"silico":[751],"TSP-encoding":[754],"genes":[755,1149,1666,1727,1778],"genomic":[757,1572,1669],"data":[758],"would":[759,1620],"not":[760],"provide":[762],"further":[763,826,1412],"details":[764],"regarding":[765],"diversity":[767,1328,1406],"virulent":[771],"but":[773],"prophages.":[782],"In":[783,1821],"report,":[785],"we":[786,1056,1276,1341,1816],"present":[787],"high-level":[789],"curated":[790,1761],"resource":[791,813,1762],"database":[794,943,1260,1339,1483,1491,1534,1542,1654,1698],"(TSPDB)":[795],"multiomics":[804],"sequence":[805,978,1004],"data.":[806],"TSPDB":[808,1078,1152,1198,1520,1564,1604,1638,1675,1732,1742,1784],"will":[809,1659,1678,1733],"indispensable":[812],"researchers":[815],"biology,":[818],"drug":[819,863],"discovery,":[820],"domains":[824,1038],"contribute":[827,1621],"understanding":[830],"structure":[833],"function":[835],"harness":[840],"potential":[842,1767],"applications,":[845],"development":[849],"infections":[855],"phage-based":[857],"biocontrol":[858,1629],"foodborne":[860],"pathogens,":[861],"discovery":[864],"(Brives":[865],"Pourraz,":[867],"2020;Roach":[868],"2015).Data":[871],"Mining":[872],"Quality":[874],"Check:":[875],"DDBJ/ENA/GenBank":[877],"UniProt":[879,885],"databases":[880,936,1137,1694,1717],"(Sayers":[881],"2022;The":[884],"Consortium":[886],"2023)":[889],"queried":[891,966],"using":[894,937,973,1351,1370,1389,1484,1552,1594],"search":[895],"terms":[896],"commonly":[897],"proteins,":[901],""phage":[904,909,912],"tailspike,"":[905],""tail":[906],"spike":[907],"proteins,"":[908],"endopeptidase,"":[910],"endorhamnosidase."":[913],"(Figure":[914,1102,1143,1195,1261,1399,1471],"1).":[915,1103],"Hits":[916],"systematically":[918],"filtered":[919],"based":[920],"annotation":[922,1042,1663],"criterion":[923],"exclude":[925],"duplicate":[926],"results.":[927],"Nucleotide":[928],"sequences":[929,961,970,1032,1084,1101,1105,1334,1348,1476],"retrieved":[933,1133],"public":[935,967,1136,1693,1716],"accession":[938,1775],"numbers":[939,1776],"obtained":[940,963],"query":[944],"via":[945],"NCBI":[946],"Entrez":[947],"Programming":[948],"Utilities":[949],"(E-utilities)":[950],"(National":[951],"Center":[952],"Biotechnology":[954],"Information,Dataset":[955],"Curation:":[956],"From":[957],"exercise,":[959],"17,211":[960],"databases.":[968],"Duplicated":[969],"removed":[972],"thresholds":[974],"\u2265":[976,1601],"95%":[977],"coverage":[979],"nucleotide":[981,1475],"similarity":[982],"cd-hit":[984],"(Li":[985],"Godzik,":[987],"2006)":[988],"Seqkit":[990],"(Shen":[991],"2016),":[994],"resulting":[995,1384],"9,129":[997],"unique":[998,1012,1099],"sequences.":[1000],"assess":[1002,1264,1326,1804],"length":[1005,1108],"distribution":[1006,1016,1269,1809],"perform":[1008],"quality":[1009],"checks":[1010],"sequences,":[1014,1055],"Gaussian":[1015],"analysis":[1017,1087,1146],"conducted.":[1019],"Sequences":[1020],"shorter":[1021,1054],"than":[1022,1203],"400":[1023,1204],"bp,":[1024,1181],"represent":[1027],"partial":[1028],"region":[1029],"incomplete":[1031],"may":[1034,1718],"lack":[1035],"critical":[1036],"functional":[1037,1044,1086,1617,1662],"required":[1039],"accurate":[1041],"prediction,":[1045],"excluded":[1047],"dataset.":[1050],"By":[1051],"excluding":[1052],"reduce":[1057],"possibility":[1059],"fragments":[1062],"introduce":[1065],"noise":[1066],"inaccuracies":[1068],"database.":[1071],"threshold":[1073],"helps":[1074],"ensure":[1075],"contains":[1079,1199,1639],"more":[1080,1202],"reliable":[1081],"complete":[1083],"annotation.":[1089],"filtering":[1091],"process":[1092],"resulted":[1093,1720],"total":[1096],"8,105":[1098,1331],"\u226410,000":[1110],"bp":[1111,1142,1194],"retained":[1113],"those":[1116],"originating":[1117],"Clostridium":[1123,1230],"Streptococcus,":[1125],"among":[1126,1253,1518],"others.":[1127,1869],"Overall":[1128],"size":[1129,1173,1185],"range":[1130],"405":[1139],"9990":[1141],"2A).":[1144],"Further":[1145],"reveals":[1153],"significant":[1155,1295,1839],"difference":[1156],"(p":[1157],"<":[1158,1291,1835],"0.001)":[1159],"sizes":[1162],"between":[1165],"bacteria.":[1169],"Specifically,":[1170],"2,070":[1180],"substantially":[1190],"larger,":[1191],"3,255":[1193],"2B).":[1196],"genera.":[1206],"Among":[1207],"these,":[1208],"top":[1210,1255],"13":[1211],"genera":[1212,1313,1857],"represented":[1213],"bacteria,":[1216],"Bacillus":[1220,1315,1433,1859],"(n=1616)":[1221],"being":[1222],"common,":[1225],"Streptococcus":[1228],"(n=1152),":[1229],"(n=683),":[1231],"Enterococcus":[1232],"(n=387),":[1233],"Staphylococcus":[1235],"(n=372).":[1236],"Additionally,":[1237,1774],"genera,":[1242,1275,1815],"(n=80),":[1244],"Escherichia":[1245],"(n=58),":[1246],"Klebsiella":[1247],"(n=52),":[1248],"(n=25)":[1251],"38":[1256],"2C).":[1262],"normality":[1266,1806],"frequencies":[1272,1812],"performed":[1277,1817],"Shapiro-Wilk":[1279,1819,1825],"test.":[1280,1820],"test":[1282,1826],"yielded":[1283,1827],"statistic":[1285,1829],"0.487":[1287,1831],"p-value":[1290,1834],"0.0001,":[1292,1836],"confirming":[1293,1837],"departure":[1296,1840],"normality.":[1298,1842],"result":[1300,1844],"supports":[1301,1845],"observation":[1303,1847],"skewed":[1306,1850],"distribution,":[1307,1851],"Gram":[1309],"positive":[1310],"(e.g.,":[1314,1858],"Streptococcus)":[1317,1861],"notably":[1319,1863],"counts":[1322,1866],"compared":[1323,1867],"others.To":[1325],"unduplicated":[1332],"suitability":[1337],"creation,":[1340],"employed":[1342],"phylogeny-based":[1344],"approach.":[1345],"aligned":[1350],"MAFFT":[1352],"v7.453":[1353],"(Katoh,":[1354],"2002),":[1355],"maximum":[1358],"likelihood":[1359],"tree":[1360,1386],"constructed":[1362],"FastTree":[1364],"v2.1.11":[1365],"(Price":[1366],"2010)":[1369],"generalized":[1372],"time":[1373],"reversible":[1374],"mode":[1375],"1000":[1377],"bootstrap":[1378],"replicates":[1379],"node":[1381],"support.":[1382],"phylogenetic":[1385],"visualized":[1388],"web-based":[1391],"Microreact":[1392],"visualization":[1393],"tool":[1394],"(Argimón":[1395],"2D).":[1400],"phylogeny":[1402],"revealed":[1403],"TSPDB,":[1411],"supporting":[1413],"uniqueness":[1415],"individual":[1417],"TSPs.":[1418],"same":[1422,1454],"species":[1423],"often":[1424],"belonged":[1425,1451],"clusters.":[1428],"Listeria":[1435],"multiple":[1439],"clusters":[1440,1470],"phylogeny.":[1443],"While":[1444],"majority":[1446],"cluster,":[1455],"there":[1456],"instances":[1461],"genus":[1467],"separate":[1469],"2D).The":[1472],"deduplicated":[1473],"utilized":[1478,1523],"construct":[1480],"makeblastdb":[1485],"(Camacho":[1486],"2009).":[1489],"compatible":[1493],"use":[1495,1547],"ABRicate":[1497,1539,1566,1578],"(https://github.com/tseemann/abricate)":[1498],"other":[1500],"equipped":[1503],"embedded":[1505],"BLAST":[1506,1510],"algorithms,":[1507],"suites":[1511],"SRST2":[1513],"(Inouye":[1514],"2014),":[1517],"others.The":[1519],"recently":[1522],"study":[1526],"2024),":[1531],"implemented":[1536],"container.":[1540],"index":[1543],"files":[1544],"suitable":[1545],"blast":[1549],"generated":[1551],"makeblast_db":[1553],"option":[1554],"ABRicate.":[1556],"step-by-step":[1558],"guide":[1559],"how":[1561],"incorporate":[1563,1738],"screening":[1569],"large":[1571,1668],"dataset":[1573,1642],"detailed":[1575],"Github":[1579],"page":[1580],"(https://github.com/tseemann/abricate).":[1581],"collection":[1588],"genomes":[1591],"determined":[1593],"stringent":[1595],"parameters":[1596],"(\u2265":[1597],"90%":[1598],"identity":[1599],"70%":[1602],"coverage).":[1603],"provides":[1605],"valuable":[1606],"fields,":[1610],"particularly":[1611],"therapy,":[1614],"biocontrol,":[1615],"genomics":[1618],"advancing":[1623],"application":[1625],"strategies":[1630],"agriculture":[1632],"safety.":[1635],"Overall,":[1636],"vast":[1641],"found":[1646],"phages,":[1648],"integration":[1651],"enhance":[1660],"metagenomic":[1671],"datasets.":[1672],"Lastly,":[1673],"described":[1676],"here":[1677],"undergo":[1679],"regular":[1680],"updates":[1681],"expansion":[1683],"new":[1686],"available":[1691,1786,1796],"ensuring":[1695],"remains":[1699],"comprehensive.Limitations:":[1700],"It":[1701],"acknowledged":[1703],"mis-annotation":[1705],"some":[1707],"hypothetical":[1710],"fibers":[1714],"omission":[1723],"certain":[1725],"study.However,":[1730],"continually":[1735],"updated":[1736],"additional":[1739],"genes.The":[1741],"freely":[1744],"GitHub":[1747,1789],"following":[1750],"link:":[1751],"https://github.com/yemilawal/Tailspike-proteins":[1752],"searching":[1755],"title":[1758],""TSPDB:":[1759],"research"":[1771],"GitHub.":[1773],"encoding":[1779],"page.":[1790],"backup":[1792],"version":[1793],"download":[1798],"Figshare":[1800],"https://doi.org/10.6084/m9.figshare.25526323.":[1802],"analysis,":[1823],"small":[1854],"number":[1855]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}