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1358, 1541, 1895, 2047], 'YC1106': [442, 1173, 1200, 1465], 'morphological': [444], 'characteristics': [445, 487, 1732], 'molecular': [447, 485], 'biology': [448], 'methods': [449], 'based': [450, 540], 'ITS': [452], 'gene': [453, 493, 946, 996, 1080, 1090, 1095, 1100, 1105, 1322, 1461], 'sequences': [454, 842, 881, 902, 997], '(He': [455], '2021).': [458], 'strain': [460, 664], 'isolated': [462, 559], 'preserved': [464], 'Microbial': [467], 'Library': [468, 677], 'Southwest': [471], 'Wild': [473], 'Germplasm': [474], 'Bank': [475], '(accession': [476], 'number:': [477], 'YMF1.07864).Genome': [478], 'sequencing': [479, 543, 716, 733, 799, 853, 1756], 'technology': [480], 'comprehensively': [482], 'analyze': [483, 1430], 'biological': [486, 1731], 'pathogenic': [489, 1401, 1766], 'at': [491], 'level': [494], 'play': [496], 'role': [499], 'clarifying': [501], 'infection': [503], 'related': [505, 1228], 'fungal': [506, 2056], '(Dong': [508], 'He': [512], 'B.': [516], '2019).': [520, 1447], 'Hence,': [521], 'it': [522, 1152], 'deeply': [526], 'explore': [527], 'secretory': [529, 1432, 1439], 'enzymes,': [530], 'protein': [531, 1014], 'composition,': [532], 'stimulating': [533], 'metabolites,': [534], 'pathways': [536], 'genome': [542, 555, 929, 1074, 1339, 1458, 1755], 'clarify': [545], 'its': [546], 'pathogenesis': [547], 'subsequent': [549], 'prevention.': [550], 'This': [551, 2115], 'study': [552], 'sequenced': [553, 628], 'previously': [558], 'YC1106.In': [562], 'project,': [564], 'genomic': [565, 578, 660, 1142], 'DNA': [566, 579, 596, 621, 661, 676, 692, 747, 769, 790], 'extracted': [568], 'using': [569, 582, 602, 637, 671, 701, 755, 780, 797, 905, 962, 972, 1046, 1563], 'CTAB': [571], 'method.': [572], 'integrity': [576, 952], 'were': [580, 600, 694, 718, 727, 753, 773, 778, 828, 848, 859, 877, 896, 903, 959, 969, 998, 1031, 1265, 1275, 1441, 1455], 'assessed': [581, 1127], '1%': [583], 'agarose': [584], 'gel': [585], 'electrophoresis': [586], 'densitometry': [588], 'compared': [589], 'appropriate': [592], 'size': [593, 1075, 1175], 'standards.': [594], 'Meanwhile,': [595], 'purity': [599], 'measured': [601], 'NanoDrop': [604], '2000': [605], 'spectrophotometer': [606], '(Thermo': [607], 'Fisher': [608], 'Scientific,': [609], 'Waltham,': [610], 'MA)': [611, 686, 710], 'TBS-380': [613], 'fluorometer': [614], '(Turner': [615], 'BioSystems': [616], 'Inc.,': [617, 762], 'Sunnyvale,': [618], 'CA).': [619, 764], 'High-quality': [620], '(OD260/280': [622], '=': [623], '1.8–2.0,': [624], '>1': [625], 'μg)': [626], 'Shanghai': [630], 'Winnerbio': [631], 'Co.,': [633], 'Ltd.': [634], '(Shanghai,': [635], 'China)': [636], 'Illumina': [638, 655, 681, 715, 732, 740, 824, 840, 924], 'NovaSeq': [639, 741], '6000': [640, 742], '(Illumina,': [641], 'San': [642], 'Diego,': [643], 'CA)': [644], '(Oxford': [649], 'Technologies,': [651], 'Oxford,': [652], 'U.K.).': [653], 'For': [654, 744], 'sequencing,': [656, 746], '1': [657], 'μg': [658], 'used': [666, 729, 878, 919, 983, 1032, 1210, 1243, 1312, 1428], 'construct': [668], 'library': [670, 807, 947], 'NEB': [673], 'Next': [674], 'Ultra': [675], 'Prep': [678], 'Kit': [679], 'for': [680, 730, 822, 835, 839, 920, 1006, 1033], '(New': [682], 'England': [683], 'Biolabs,': [684], 'Ipswich,': [685], 'according': [687, 1385], "manufacturer's": [690, 713], 'protocol.': [691, 714], 'samples': [693], 'sheared': [695, 722], 'into': [696], '400-': [697], '500-bp': [699], 'fragments': [700, 748, 770], 'Covaris': [703], 'M220': [704], 'Focused': [705], 'Acoustic': [706], 'Shearer': [707], '(Covaris,': [708], 'Woburn,': [709], 'following': [711, 1048], 'libraries': [717, 726], 'prepared': [719, 725], 'from': [720, 1271, 1994], 'fragments.': [723], 'then': [728], 'paired-end': [731], '(2': [734], '×': [735], '150': [736], 'bp)': [737], 'machine.': [743], 'ONT': [745, 826, 875, 901], 'larger': [749], 'than': [750, 857], '20': [751], 'kb': [752], 'screened': [754], 'beads': [756, 794], '(Agencourt': [757], 'AMPure': [758], 'XP,': [759], 'Beckman': [760], 'Coulter,': [761], 'Pasadena,': [763], 'ends': [766], 'interest': [772], 'repaired,': [774], 'barcode': [776], 'tags': [777], 'added': [779, 809], 'EXP-NBD104/114': [782], 'kit': [783], 'after': [784, 873, 898], 'bead': [785], 'purification.': [786], 'product': [788], 'purified': [792], 'ligated': [796], 'adapter': [800, 844], 'SQK-LSK109': [803], 'kit.': [804], 'constructed': [806, 1301], 'flow': [812], 'cell': [813, 2061], 'transferred': [815], 'platform': [821, 1793], 'sequencing.The': [823], 'data': [827, 834, 866, 876, 892, 1225, 1463], 'controlled': [830], 'obtain': [832], 'clean': [833, 865, 869], 'downstream': [836], 'analysis.': [837], 'Specifically,': [838], 'data,': [841], 'containing': [843], 'N': [846], 'bases': [847, 933], 'removed,': [849], 'reads': [851, 870, 895, 926], 'values': [855], 'less': [856], 'Q20': [858], 'removed.': [860], 'Finally,': [861], '4.3': [862], 'Gb': [863, 890], '28,703,866': [868], 'obtained': [872, 897, 1341], 'filtering.': [874, 899], 'remove': [880], 'average': [884, 1079], 'value': [886], '≤7,': [887], '5.4': [889], '504,813': [894], 'Then,': [900], 'assembled': [904, 955], 'Canu': [907], 'assembler': [908], '(version': [909, 915, 964, 974, 980], '2.2,': [910], 'https://github.com/marbl/canu),': [911], 'Pilon': [913], 'software': [914], '1.24,': [916], 'https://github.com/broadinstitute/pilon)': [917], 'assembly': [921, 1132, 1459], 'polishing': [922], 'short': [925], 'improve': [928], '2,416': [932], 'corrected.': [934], 'BUSCO': [935, 1126], '(Benchmarking': [936], 'Universal': [937], 'Single-Copy': [938], 'Orthologs:': [939], 'http://busco.ezlab.org/)': [940], 'evaluation': [941], 'uses': [942], 'single-copy': [944], 'orthologous': [945], 'combined': [948], 'evaluate': [950], 'genomes.The': [956], 'rRNA': [957, 1119], 'genes': [958, 968, 1217, 1251, 1270, 1335, 1356], 'Barrnap': [963], '0.9),': [965], 'tRNA': [967, 1112], 'tRNAscan-SE': [973], '2.0.8)': [975], 'default': [977, 992], 'settings.': [978], 'MAKER': [979], '3.01.03)': [981], 'predict': [985], 'open': [987], 'reading': [988], 'frame': [989], '(ORF)': [990], 'parameters.': [993], 'predicted': [995, 1442], 'translated': [999], 'searched': [1001], 'against': [1002], 'National': [1004, 2141], 'Center': [1005], 'Biotechnology': [1007], '(NCBI)': [1009], 'nonredundant': [1010], 'database.': [1011, 1348], 'UniProt/Swiss-Prot,': [1013], 'families': [1015], '(Pfam),': [1016], 'Clusters': [1017], 'Orthologous': [1019], 'Group': [1020], '(COG),': [1021], 'Kyoto': [1023], 'Encyclopedia': [1024], 'Genes': [1026, 1056], 'Genomes': [1028], '(KEGG)': [1029], 'databases': [1030], 'annotation': [1034, 1042, 1214, 1226, 1344, 1462, 1668], 'blastP': [1036, 1065], 'E-values': [1038, 1067], '≤1e−5.': [1040], 'Additional': [1041], 'carried': [1044], 'out': [1045], 'databases:': [1049], 'Pathogen': [1050], 'Host': [1051], 'Interactions': [1052], '(PHI),': [1053], 'Antibiotic': [1054], 'Resistance': [1055], 'Database': [1057], '(ARDB),': [1058], 'Carbohydrate': [1060], 'Active': [1061], 'enZYmes': [1062], '(CAZy)': [1063], '≤1e−5.The': [1069], 'results': [1070], 'showed': [1071], '32,360,171': [1077], 'bp,': [1078, 1085], 'length': [1081], '(bP)': [1082], '1,855.58': [1084], 'GC': [1086, 1160, 1163], 'content': [1087], 'region': [1091], '50.65%,': [1093], 'KEGG': [1094], 'number': [1096, 1101, 1106, 1110, 1117, 1249, 1268, 1388, 1395], '3,722,': [1098], 'COG': [1099], '9,557,': [1103], 'GO': [1104], '7,006,': [1108], 'total': [1109, 1116, 1259, 1436], '110,': [1114], '18': [1121], '(Fig.': [1122], '1;': [1123], 'Table': [1124, 1137], '1).': [1125], 'completeness': [1130], 'result': [1133], '98.3%': [1135], '(Supplementary': [1136], 'S1).Fig.': [1138], '1.': [1139, 1167, 1194], 'Circos-plot': [1140], 'features': [1143, 1169, 1196], 'YC1106.': [1147], 'From': [1148], 'outside': [1149], 'inside,': [1151], 'represents': [1153], 'chromosome,': [1154], 'positive-stranded': [1155], 'gene,': [1156, 1158], 'negative-stranded': [1157], 'ncRNA,': [1159], 'content,': [1161], 'skew.Download': [1164], 'PowerPointTable': [1166], 'Genome': [1168, 1195, 1667], 'strainFeaturesNumbersGenome': [1174], '(bp)32,360,171Scaffold': [1176], 'no.8GC': [1177], 'Content': [1178], '(%)50.65CDS': [1179], 'no.10,838Genes': [1180], 'KEGG3,722Genes': [1182], 'COG9,557Genes': [1184], 'GO7,006tRNA': [1186], 'no.110rRNA': [1187], 'no.18Scaf': [1188], 'N50': [1189], '(bp)4,749,760Scaf': [1190], 'N90': [1191], '(bp)2,896,455Gene': [1192], 'no.10,838Table': [1193], 'strainView': [1201], 'image': [1203], 'HTML': [1204], 'Furthermore,': [1205], 'CAZy': [1207, 1221, 1240], 'database': [1208, 1227, 1241, 1262, 1299, 1426], 'perform': [1212], 'functional': [1213], 'clavata.': [1220, 1247, 1701], 'professional': [1224], 'carbohydrate': [1230, 1284], 'enzymes': [1231], '(Zhao': [1232], '2013).': [1235], 'study,': [1238, 1329], 'annotate': [1245], 'annotated': [1252, 1390], 'CAZymes': [1254], '526,': [1256], 'five': [1261], 'classification': [1263], 'types': [1264], 'annotated.': [1266], 'high': [1272], 'low': [1274], 'glycoside': [1276], 'hydrolases': [1277], '(GHs,': [1278], '227),': [1279], 'auxiliary': [1280], 'activities': [1281], '(AAs,': [1282], '128),': [1283], 'esterases': [1285], '(CEs,': [1286], '87),': [1287], 'glycosyl': [1288], 'transfers': [1289], '(GTs,': [1290], '65),': [1291], 'polysaccharide': [1293], 'lyases': [1294], '(PLs,': [1295], '16).': [1296], 'CARD': [1298, 1347], 'form': [1304], 'antibiotic': [1306, 1315], 'resistance': [1307, 1320, 1334, 1355], 'ontology': [1308], '(ARO),': [1309], 'correlate': [1314], 'modules': [1316], 'their': [1318], 'targets,': [1319], 'mechanisms,': [1321], 'variations,': [1323], 'other': [1325], 'information.': [1326], 'information': [1331], 'drug': [1333, 1354], 'contained': [1336], 'each': [1338], 'through': [1342], 'mainly': [1360], 'targeted': [1361], 'antibiotics': [1363], 'tetracycline,': [1364], 'fluoroquinolone,': [1365], 'macrolide,': [1366], 'rifamycin,': [1367], 'cephalosporin.': [1369], 'Based': [1370], 'PHI': [1373], 'database,': [1374], 'pathogen-host': [1376], 'interaction': [1377], 'analyzed,': [1379], 'phenotype': [1382], 'genes.': [1391, 1767], 'Among': [1392], 'them,': [1393], 'interacting': [1397], 'phenotypes': [1398], 'key': [1400, 1765], 'genes,': [1402, 1414], 'including': [1403], 'increased': [1404], 'virus': [1405], '(hypervirulence),': [1406], 'effector': [1407], '(plant': [1408], 'availability': [1409], 'determinant),': [1410], 'enhanced': [1412], 'antigen': [1413], '124,': [1416], '17,': [1417], 'one,': [1419], 'respectively.': [1420], 'work,': [1423], 'SignalP': [1425, 1557], 'proteins,': [1433], '1,064': [1438], 'proteins': [1440], '(Almagro': [1443], 'Armenteros': [1444], 'Through': [1448], 'analysis': [1450, 1760, 2054], 'transporters,': [1452], '1,598': [1453], 'transporters': [1454], 'annotated.Data': [1456], 'AvailabilityThe': [1457], 'deposited': [1468], 'GenBank': [1470], 'under': [1471], 'accession': [1473], 'numbers': [1474, 1483], 'CP089274': [1475], 'CP089281.': [1477], 'associated': [1479], 'BioProject': [1480], 'Bio-Sample': [1482], 'are': [1484], 'PRJNA785728': [1485], 'SAMN23575317,': [1487], 'respectively.The': [1488], 'author(s)': [1489, 2161, 2240], 'declare': [1490, 2162, 2241], 'no': [1491, 2163, 2242], 'conflict': [1492, 2164, 2243], 'interest.Literature': [1494], 'CitedAbdElfatah,': [1495], 'H.': [1496, 1507, 1555, 2044], 'S.,': [1497, 1504, 1549, 1577, 1917, 1948], 'Sallam,': [1498], 'N.': [1499, 1922, 1956, 2013], 'M.': [1500, 1503, 1508, 1509, 1591, 1952, 1988], 'A.,': [1501, 1883, 1919, 1950], 'Mohamed,': [1502], 'Bagy,': [1506], 'K.': [1510, 1538, 1879, 2016], '2021.': [1511, 1666, 1728, 1753], 'lunata': [1513, 1821, 1929, 1971], 'new': [1515, 1862, 1998], 'causal': [1516], 'tomato': [1519], 'early': [1520], 'blight': [1521, 1638], 'disease': [1522], 'Egypt.': [1524], 'Mol.': [1525, 1768], 'Biol.': [1526], 'Rep.': [1527], '48:3001‐3006.': [1528], 'https://doi.org/10.1007/s11033-021-06254-8': [1529], 'Crossref,': [1530, 1571, 1616, 1676, 1705, 1773, 1804, 1840, 1868, 1941, 1979, 2038, 2071, 2103], 'ISI,': [1531, 1572, 1617, 1653, 1677, 1706, 1774, 1805, 1841, 1869, 1911, 1942, 1980, 2004, 2072], 'Google': [1532, 1573, 1618, 1654, 1678, 1707, 1745, 1775, 1806, 1842, 1870, 1912, 1943, 1981, 2005, 2039, 2073, 2104], 'ScholarAlmagro': [1533], 'Armenteros,': [1534], 'J.': [1535, 1611, 1623, 1727, 1786, 1815, 1835, 1872, 1937, 1974, 1987, 2098], 'J.,': [1536, 1582, 1718], 'Tsirigos,': [1537], 'D.,': [1539, 1624, 1779, 1812, 1877, 2017], 'Sønderby,': [1540], 'K.,': [1542, 1579, 1660, 1953], 'Petersen,': [1543], 'T.': [1544, 1986], 'N.,': [1545, 1723, 2014], 'Winther,': [1546], 'O.,': [1547], 'Brunak,': [1548], 'von': [1550], 'Heijne,': [1551], 'G.,': [1552, 1875, 1885], 'Nielsen,': [1554], '2019.': [1556, 1596, 1787, 1816], '5.0': [1558], 'improves': [1559], 'signal': [1560], 'peptide': [1561], 'predictions': [1562], 'deep': [1564], 'neural': [1565], 'networks.': [1566], 'Nat.': [1567], 'Biotechnol.': [1568, 1613], '37:420‐423.': [1569], 'https://doi.org/10.1038/s41587-019-0036-z': [1570], 'ScholarBengyella,': [1574], 'L.,': [1575, 1585, 1662, 1783], 'Iftikhar,': [1576], 'Nawaz,': [1578], 'Fonmboh,': [1580], 'D.': [1581], 'Yekwa,': [1583], 'E.': [1584, 1888], 'Jones,': [1586], 'R.': [1587], 'C.,': [1588, 1628, 1658], 'Njanu,': [1589], 'T.,': [1592, 1749, 1810, 2042], 'Roy,': [1594], 'P.': [1595, 1849], 'Biotechnological': [1597], 'application': [1598], 'endophytic': [1600], 'filamentous': [1601], 'bipolaris': [1602], 'curvularia:': [1604], 'A': [1605, 1790], 'review': [1606], 'bioeconomy': [1608], 'impact.': [1609], 'World': [1610], 'Microbiol.': [1612], '35:69.': [1614], 'https://doi.org/10.1007/s11274-019-2644-7': [1615], 'ScholarChen,': [1619], 'X.': [1620, 1631, 1665, 1726, 1752], 'Y.,': [1621, 1656, 1713, 1715, 1844, 1880], 'Feng,': [1622], 'Su,': [1625], 'Z.,': [1626, 1808, 2019], 'Sui,': [1627], 'Huang,': [1630, 1682], '2013.': [1632, 2052], 'First': [1633, 1817, 1925, 1959], 'report': [1634, 1818, 1926, 1960], 'Curcuma': [1640], 'wenyujin': [1641], 'China.': [1647, 1834, 2096], 'Plant': [1648, 1836, 1906, 1938, 1975, 2099], 'Dis.': [1649, 1907], '97:138.': [1650], 'https://doi.org/10.1094/pdis-04-12-0392-pdn': [1651], 'Link,': [1652, 1910], 'ScholarDong,': [1655], 'Kim,': [1659], 'Cui,': [1661], 'Liu,': [1664, 1809, 2043], 'disease-causing': [1670], 'microorganisms.': [1671], 'Brief': [1672], 'Bioinform.': [1673], '22:845‐854.': [1674], 'https://doi.org/10.1093/bib/bbab004': [1675], 'ScholarFan,': [1679], 'M.,': [1681, 1721, 1846, 1873, 1983], 'W.-M.,': [1683], 'S.-F.,': [1685], 'Wu,': [1686], 'G.-F.,': [1687], 'W.,': [1689, 2011], 'Chen,': [1691, 1725, 1782, 1811, 2018], 'R.-Y.': [1692], '2009.': [1693], 'Cutaneous': [1694], 'foot': [1697], 'Mycoses': [1702], '52:544‐546.': [1703], 'https://doi.org/10.1111/j.1439-0507.2008.01646.x': [1704], 'ScholarHe,': [1708, 1746], 'S.': [1709], 'F.,': [1710, 2048], 'Sang,': [1711], 'W.': [1712, 1850], 'Sun,': [1716], 'G.': [1717, 1882], 'Pan,': [1719], 'Identification': [1729, 2084], 'tobacco': [1737], 'curvularia': [1738], 'spot.': [1740], 'Chin.': [1741], 'Tob.': [1742], 'Sci.': [1743], '42:50‐56.': [1744], 'X.,': [1747], 'Zhou,': [1751], 'Whole': [1754], 'comparative': [1758, 1791], 'genomics': [1759], 'Pectobacterium': [1762], 'carotovorum': [1763], 'identifies': [1764], 'Phylogenet.': [1769], 'Evol.': [1770], '162:107114.': [1771], 'https://doi.org/10.1016/j.ympev.2021.107114': [1772], 'ScholarLiu,': [1776, 1807], 'B.,': [1777], 'Zheng,': [1778], 'Jin,': [1780], 'Q.,': [1781, 2007, 2045], 'Yang,': [1785, 2008], 'VFDB': [1788], '2019:': [1789], 'pathogenomic': [1792], 'interactive': [1796], 'web': [1797], 'interface.': [1798], 'Nucleic': [1799], 'Acids': [1800], 'Res.': [1801], '47:D687‐D692.': [1802], 'https://doi.org/10.1093/nar/gky1080': [1803], 'Hou,': [1814], 'spots': [1824], 'Partridge': [1826], 'tea': [1827], '[Mallotus': [1828], 'oblongifolius': [1829], '(Miq.)': [1830], 'Mûll.': [1831], 'Arg.]': [1832], 'Pathol.': [1837, 1939, 1976, 2100], '101:439.': [1838], 'https://doi.org/10.1007/s42161-018-00208-z': [1839], 'ScholarMarin-Felix,': [1843], 'Hernández-Restrepo,': [1845], 'Crous,': [1848], '2020.': [1851, 2023], 'Multi-locus': [1852], 'phylogeny': [1853], 'description': [1859], 'ten': [1861], 'species.': [1863], 'Mycol.': [1864], 'Prog.': [1865], '19:559‐588.': [1866], 'https://doi.org/10.1007/s11557-020-01576-6': [1867], 'ScholarTovar-Pedraza,': [1871], 'Márquez-Licona,': [1874], 'Bárcenas-Santana,': [1876], 'Leyva-Madrigal,': [1878], 'Mora-Romero,': [1881], 'Llaven-Valencia,': [1884], 'García-León,': [1887], '2023.': [1889], 'Occurrence': [1890], 'pisi': [1893], 'muehlenbeckiae': [1896], 'guar': [1901], '(Cyamopsis': [1902], 'tetragonoloba)': [1903], 'Mexico.': [1905], '107:565.': [1908], 'https://doi.org/10.1094/PDIS-04-22-0858-PDN': [1909], 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