Publication Information

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2828], 'Jinping': [52, 164, 207], 'YuShipeng': [53], 'LuInstitute': [54], 'Botany,': [56, 82, 96, 110, 124, 138, 152, 179, 212, 2673, 2811], 'Jiangsu': [57, 83, 97, 111, 125, 139, 153, 180, 213, 2642, 2659, 2674, 2781, 2798, 2812], 'Province': [58, 84, 98, 112, 126, 140, 154, 181, 214, 2643, 2660, 2675, 2813], 'Chinese': [60, 86, 100, 114, 128, 142, 156, 183, 216, 2506, 2677, 2815], 'Academy': [61, 87, 101, 115, 129, 143, 157, 184, 217, 2678, 2816], 'Sciences,': [63, 89, 103, 117, 131, 145, 159, 186, 219], 'Nanjing': [64, 90, 104, 118, 132, 146, 160, 187, 220], '210014,': [65, 91, 105, 119, 133, 147, 161, 188, 221], 'China,': [66, 92, 106, 120, 134, 148, 162], 'Feng†Corresponding': [68], 'authors:': [69, 166], 'J.': [70, 167, 2209, 2381, 2470, 2570], 'Yu;': [71, 168], 'E-mail': [72, 78, 169, 175], 'Address:': [73, 79, 170, 176], '[email protected],': [74, 171], 'L.': [76, 173, 1711, 1896, 2018, 2027], 'Feng;': [77, 174], '[email protected]://orcid.org/0000-0002-5688-1287Institute': [80], 'ZhouInstitute': [94], 'JiaInstitute': [108], 'LiuInstitute': [122], 'HouInstitute': [136], 'LiInstitute': [150], 'Yu†Corresponding': [165], '[email protected]://orcid.org/0000-0002-6679-120XInstitute': [177], 'ChinaAffiliationsAuthors': [189], 'Affiliations': [191], 'Shipeng': [192], 'Lu': [193], 'Feng': [195], '†': [196, 209], 'Zhou': [198], 'Jia': [200], 'Liu': [202], 'Hou': [204], 'Li': [206], 'Yu': [208], 'Institute': [210, 2671, 2809], 'China': [222, 463], 'Published': [223], 'Online:12': [224], 'Dec': [225, 2744, 2747], '2022https://doi.org/10.1094/MPMI-07-22-0147-AAboutSectionsView': [226], 'articlePDFSupplemental': [227], 'ToolsAdd': [228], 'to': [229, 339, 379, 533, 606, 612, 736, 903, 1166, 1179, 1233, 1247, 1255, 1268, 1308, 1314, 1321, 1340, 1347, 1354, 1394, 1420, 1426, 1459, 2585, 2698], 'favoritesDownload': [230], 'CitationsTrack': [231], 'Citations': [232], 'ShareShare': [233], 'onFacebookTwitterLinked': [234], 'InRedditEmailWechat': [235], 'View': [236], 'articleGenome': [237], 'AnnouncementPlant': [238], 'growth–promoting': [239, 455, 479], 'rhizobacteria': [240, 1658], '(PGPR)': [241, 1659], 'are': [242, 1472], 'a': [243, 273, 304, 353, 488, 673, 832, 928, 933, 1433, 1510, 2171], 'group': [244], 'plant-beneficial': [246], 'microbes': [247], 'that': [248, 376, 1483], 'live': [249], 'freely': [250], 'in': [251, 359, 461, 1033, 1121, 1127, 1134, 1149, 1194, 1258, 1271, 1330, 1363, 1381, 1439, 1461, 1474, 1533, 1590, 1624, 1744, 1840, 1930, 2049, 2087, 2689], 'surrounding': [253], 'rhizosphere': [254, 1683, 2089, 2608], 'or': [255, 266, 2700], 'plants.': [256], 'PGPR': [257, 297, 346], 'can': [258], 'either': [259], 'stimulate': [260], 'plant': [261, 319, 331, 380, 411, 415, 454, 478, 511, 515, 1180, 1396, 1400, 1470, 1489, 1587, 1594, 1686, 1980], 'growth,': [262], 'improve': [263, 323], 'stress': [264, 1596, 1981], 'resistance,': [265], 'protect': [267], 'plants': [268], 'against': [269, 792, 835], 'foliar': [270], 'pathogens': [271], 'by': [272, 574, 584, 593, 713, 746, 765, 776, 790, 800, 1983, 1989, 2090, 2304, 2629], 'series': [274], 'signaling': [276], 'network': [277], 'responses': [278], 'from': [279, 352, 966, 2531, 2631], 'molecular': [280, 1136, 1160, 1171], 'recognition': [281, 819, 1775], 'between': [282], 'two': [284, 975], 'partners': [285], '(Berendsen': [286], 'et': [287, 291, 343, 576, 717, 724, 750, 756, 769, 782, 813, 822, 845, 862, 872, 880, 893, 907, 923, 1183, 1239, 1288, 1292, 1296, 1404, 1409], 'al.': [288, 292, 344, 577, 718, 725, 751, 757, 770, 783, 814, 823, 846, 863, 873, 881, 894, 908, 924, 1184, 1240, 1289, 1293, 1297, 1405, 1410], '2012;': [289], 'Zhang': [290], '2017).': [293, 909], 'The': [294, 363, 438, 529, 579, 695, 709, 741, 896, 1112, 1186, 1615, 1682, 2044, 2078, 2606, 2632, 2684, 2714, 2757], 'use': [295], 'strains': [298], 'as': [299, 408, 410, 427, 487, 559, 1066, 1088, 1660, 2170], 'novel': [300], 'microbial': [301], 'fertilizer': [302, 358], 'is': [303, 1987, 2717, 2759], 'promising': [305], 'biological': [306, 1123, 1143], 'approach': [307], 'toward': [308], 'sustainable': [310], 'intensification': [311], 'agriculture.': [313], 'It': [314], 'could': [315, 398, 509], 'not': [316], 'only': [317, 1227], 'promote': [318, 400, 1488], 'growth': [320, 381, 402, 502, 1397, 1490, 1656, 2831], 'but,': [321], 'also,': [322], 'soil': [324], 'nutrients,': [325], 'relieve': [326], 'crop': [327, 2612], 'stress,': [328], 'enhance': [330], 'disease': [332], 'resistance': [333], 'while': [334, 1226], 'showing': [335], 'least': [337], 'pollution': [338], 'environment': [341], '(Basu': [342], '2021).One': [345], 'bacterial': [347, 1495, 1585, 1899, 2528], 'strain,': [348], 'CNBG-PGPR-1,': [349], 'was': [350, 372, 425, 568, 582, 591, 610, 638, 658, 683, 734, 829, 900, 917, 1192, 1367, 1392, 2626], 'isolated': [351], 'naturally': [354], 'fermented': [355], 'liquid': [356], 'organic': [357, 392, 1334], 'Nanjing,': [360], 'Jiangsu,': [361], 'China.': [362], 'genome': [364, 440, 486, 537, 624, 676, 686, 912, 1481, 1506, 1522, 1526, 2205, 2454, 2463, 2529], 'consisted': [365], 'one': [367, 663], 'chromosome': [368, 525, 931], 'no': [370, 1551, 2687, 2707, 2835], 'plasmid': [371], 'detected.': [373], 'Several': [374], 'genes': [375, 386, 762, 773, 963, 986, 1000, 1070, 1082, 1120, 1126, 1133, 1146, 1163, 1245, 1253, 1265, 1286, 1306, 1312, 1327, 1345, 1352, 1361, 1378, 1418, 1437, 1467, 1900], 'may': [377, 1176], 'contribute': [378], 'promotion': [382], 'were': [383, 711, 744, 763, 774, 788, 797, 808, 964, 970, 987, 1001, 1031, 1071, 1083, 1118, 1147, 1164, 1231, 1243, 1266, 1304, 1328, 1337, 1359, 1379, 1429, 1432, 1452], 'identified,': [384], 'including': [385, 700, 1274, 1343, 1384], 'tryptophan': [388, 1364, 1497], 'metabolism,': [389, 1195, 1310, 1365, 1383, 1500], 'biosynthesis': [390, 899, 1332], 'acids,': [393, 1335], 'sulfur': [395, 1382, 1499, 1588], 'metabolism.': [396, 1323], 'effectively': [399], 'tomato': [404, 504], 'seedlings': [405], '(Fig.': [406, 422, 950], '1A)': [407], 'well': [409], 'height,': [412, 512], 'root': [413, 419, 513, 519], 'length,': [414, 514], 'fresh': [416, 420, 516, 520], 'weight,': [417, 517], 'weight': [421], '1B).': [423], 'identified': [426, 799], 'subtilis,': [429], 'based': [430, 2413], 'on': [431, 500, 662, 688, 2414, 2648, 2787], '16S': [432], 'ribosomal': [433, 551, 2274], 'RNA': [434, 548, 552, 760, 962, 1877, 2275], '(rRNA)': [435], 'gene': [436, 827, 946, 1017, 1055, 1742, 1844, 2175, 2829], 'analysis.': [437], 'complete': [439, 485, 1525], 'data': [441, 2693], 'strain': [443, 508, 566, 1041, 1062, 1190], 'will': [445, 1508], 'provide': [446, 473, 1509], 'valuable': [447, 489, 1511], 'resources': [448], 'genetic': [450, 1198], 'dissection': [451], 'its': [453, 477, 484, 1621, 1935, 2503], 'feature': [456], 'has': [458, 1530], 'been': [459, 1531], 'deposited': [460, 1532], 'General': [464, 1037, 1058], 'Microbiological': [465], 'Culture': [466], 'Collection': [467], 'Center': [468], '(CGMCC': [469], 'number': [470, 947, 1435, 1537], '19564).': [471], 'To': [472], 'genomic': [474, 563, 636, 972, 1038, 1059, 1718], 'insights': [475], 'into': [476, 1073], 'properties,': [480], 'we': [481], 'here': [482], 'describe': [483], 'resource.Fig.': [490], '1.': [491, 1036, 1057], 'A,': [492], 'Effect': [493], 'inoculation': [495], 'with': [496, 703, 914, 932, 1003, 1006, 1010, 1085, 1169, 1219, 1469, 1904, 2462], 'seedlings.': [505, 2508], 'B,': [506], 'This': [507, 1505, 2624, 2716], 'increase': [510], 'weight.': [521], 'C,': [522], 'Graphical': [523], 'circular': [524, 911, 930], 'map': [526, 913], 'CNBG-PGPR-1.': [528], 'seven': [530], 'circles': [531], '(outer': [532], 'inner)': [534], 'represent': [535], 'forward': [536], 'size,': [538], 'strand': [539], 'coding': [540, 543, 1052], 'sequences,': [541, 544, 546], 'reverse-strand': [542], 'repetitive': [545], 'transfer': [547, 954, 1876], '(blue)': [549], '(purple),': [553], 'GC': [554, 557], 'content,': [555], 'skew.Download': [558], 'PowerPointIn': [560], 'this': [561], 'study,': [562], 'DNA': [564, 581, 589, 599, 637, 1903], 'extracted': [569], 'following': [570, 648], 'method': [572], 'described': [573], 'Lueders': [575], '(2004).': [578], 'harvested': [580], 'detected': [583, 1032, 1267], 'agarose': [585], 'gel': [586], 'electrophoresis': [587], 'concentration': [590], 'determined': [592], 'NanoDrop': [594], '(Thermo': [595], 'Fisher': [596], 'Scientific).': [597], 'High-quality': [598], '(optical': [600], 'density': [601], 'at': [602, 1520], '260/280': [603], '=': [604], '1.8': [605], '2.0,': [607], '>20': [608], 'μg)': [609], 'sent': [611], 'Shanghai': [613], 'Majorbio': [614], 'Bio-Pharm': [615], 'Technology': [616, 2649, 2788], 'Co.,': [617], 'Ltd.': [618], 'subsequent': [620], 'library': [621, 657], 'construction,': [622], 'sequencing,': [623], 'assembly,': [625], 'annotation.': [627, 2178], 'In': [628, 671, 980, 997, 1299, 1412], 'brief,': [629], 'an': [630, 689, 2718, 2760], 'aliquot': [631], '15': [633, 1360], 'μg': [634], 'used': [639, 735], 'Pacific': [642], 'Biosciences': [643], 'RS': [644], 'II': [645], 'sequencing': [646, 677, 696, 2455, 2535], 'platform,': [647], 'manufacturer': [649], 'recommendations': [650], '(Pacific': [651], 'Biosciences).': [652], 'An': [653, 2238, 2384], 'approximately': [654], '10-kb': [655], 'insert': [656], 'prepared': [659], 'sequenced': [661], 'single-molecule': [664], 'real-time': [665], '(SMRT)': [666], 'cell,': [667], 'using': [668, 810, 831, 919, 989], 'standard': [669], 'methods.': [670], 'addition,': [672, 981], 'paired-end': [674], 'Illumina': [675, 690], 'dataset': [678], '(2': [679], '×': [680], '150': [681], 'bp)': [682], 'obtained': [684], 'evaluation': [687], 'HiSeq': [691], 'X': [692], 'Ten': [693], 'platform.': [694], 'yielded': [697], '503,288': [698], 'reads,': [699], '5,223,125,649': [701], 'bp,': [702, 938], 'coverage': [704], '1,289.63×': [706], 'sequence': [707, 828, 850, 1507, 1527, 1618], 'depth.': [708], 'reads': [710], 'assembled': [712], 'SOAPdenovo': [714], 'v2.04': [715], '(Luo': [716], '2012)': [719], 'unicycler': [721], 'v0.4.8': [722], '(Wick': [723], '2017)': [726, 815], 'after': [727, 739], 'quality': [729], 'control.': [730], 'SOAP': [731], 'GapCloser': [732], 'V1.12': [733], 'close': [737], 'gaps': [738], 'assembly.': [740], 'protein-coding': [742], 'sequences': [743, 2464], 'predicted': [745, 764, 789, 809, 826, 901, 965, 1165], 'Glimmer': [747], '3.02': [748], '(Delcher': [749], '2007)': [752], 'GeneMarkS': [754], '(Besemer': [755], '2005).': [758], 'Transfer': [759], '(tRNA)': [761], 'tRNAscan-SE': [767, 1868], '(Chan': [768], '2021).': [771], 'rRNA': [772], 'analyzed': [775], 'rRNAmmer': [778], '(version': [779], '1.2)': [780], '(Lagesen': [781], '2007).': [784], 'Other': [785], 'noncoding': [786, 961], 'RNAs': [787], 'BLAST': [791, 833], 'Rfam': [794], 'database': [795, 843, 851, 860, 870, 1114, 1619, 1929, 2048], 'then': [798], 'software': [802, 921, 1740], 'Infernal.': [803], 'Genomic': [804], 'island': [805], 'CRISPR': [807, 818, 976, 1774], 'IslandViewer': [811, 1713], '(Bertelli': [812], 'tool': [820, 1776, 1779], '(Bland': [821], '2007),': [824], 'respectively.The': [825], 'annotated': [830, 1002], 'search': [834], 'six': [836], 'function': [837, 1137, 1172, 2148], 'databases:': [838], 'Nonredundant': [840], 'protein': [841, 849, 857, 1617, 1931, 2046, 2147, 2177], '(NR)': [842], '(Deng': [844], '2006),': [847], 'Swiss-Prot': [848], '(Bairoch': [852], 'Apweiler': [854], '2000),': [855], 'families': [858, 2047], '(Pfam)': [859], '(El-Gebali': [861], '2019),': [864, 874], 'Clusters': [865], 'Orthologous': [867], 'Groups': [868], '(COG)': [869], '(Wang': [871], 'Gene': [875], 'Ontology': [876], '(GO)': [877], 'databases': [878, 891], '(Jones': [879], '2014),': [882], 'Kyoto': [884], 'Encyclopedia': [885], 'Genes': [887], 'Genomes': [889], '(KEGG)': [890], '(Kanehisa': [892, 1238], '2016a).': [895], 'secondary': [897, 1015], 'metabolite': [898, 1054], 'according': [902], 'antiSMASH': [904, 1838], '4.0': [905, 2727, 2769], '(Blin': [906], 'A': [910, 1778, 2578], 'functional': [915, 1076, 1873, 2202], 'annotation': [916, 1188, 1932, 2272], 'plotted': [918], 'Circos': [920], '(Krzywinski': [922], '2009).The': [925], 'assembly': [926], 'generated': [927], 'single': [929], 'total': [934], 'size': [935, 1045], '4,050,098': [937], 'G': [939], '+': [940], 'C': [941], 'content': [942, 1047], '43.66%,': [944], '4,214': [949], '1C).': [951], 'Furthermore,': [952], '86': [953], 'RNAs,': [955], '30': [956], 'rRNAs,': [957], '117': [959, 1319, 1424], 'other': [960, 2466], 'genome.': [968], 'There': [969, 1242, 1431], '13': [971], 'islands': [973, 1719], 'sites': [977], '(Table': [978], '1).': [979], '2,841,': [982], '2,360,': [983], '3,395': [985], 'annotated,': [988], 'GO,': [991], 'KEGG,': [992], 'COG': [994, 1075], 'databases,': [995], 'respectively.': [996], 'total,': [998], '3,718': [999], 'Pfam,': [1004], '3,968': [1005], 'Swiss-Prot,': [1007], '4,205': [1009], 'NR': [1012], 'database.': [1013], 'Eight': [1014], 'metabolism-related': [1016], 'clusters': [1018], 'nonribosomal': [1020], 'peptide': [1021], 'synthetase,': [1022], 'terpene': [1023], 'biosynthesis,': [1024], 'type': [1025], 'III': [1026], 'polyketide': [1027], 'synthase,': [1028], 'head-to-tail': [1030], 'genome.Table': [1035], 'features': [1039, 1060], 'CNBG-PGPR-1FeaturesChromosomeGenome': [1044], '(bp)4,050,098GC': [1046], '(%)43.66Ribosomal': [1048], 'RNAs30Transfer': [1049], 'RNAs86Other': [1050], 'RNAs117Predicted': [1051], 'sequences4,214Secondary': [1053], 'clusters8Table': [1056], 'CNBG-PGPR-1View': [1065], 'image': [1067], 'HTML': [1068], 'All': [1069], 'classified': [1072], '21': [1074, 1275], 'categories,': [1077], 'most': [1079, 1145], 'associated': [1084, 1168, 1468], 'functions': [1086], 'such': [1087], '"amino': [1089], 'acid': [1090, 1316, 1374, 1991], 'transport': [1091, 1095, 1106, 1422], 'metabolism",': [1093, 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2169, 2199], 'manifested': [1193], 'processes,': [1197], 'information': [1199, 1205, 1415, 2239], 'processing,': [1200, 1416], 'organismal': [1201], 'systems,': [1202], 'environmental': [1204, 1414], 'processing': [1206], 'S3)': [1209], 'shared': [1211], '95.7%': [1212], 'identical': [1215], 'orthology': [1217], 'items': [1218], 'subsp.': [1222], '168': [1224], '(CP020102),': [1225], '0.9%': [1228], 'knockouts': [1230], 'unique': [1232], 'S4)': [1237], '2016b).': [1241], '73': [1244], 'related': [1246, 1254, 1307, 1313, 1320, 1339, 1346, 1353, 1393, 1419, 1425], 'community': [1250], '48': [1252], 'cell': [1256], 'motility': [1257], 'processes.': [1261], 'Of': [1262], 'them,': [1263], 'some': [1264], 'bacteria-plant': [1272, 2411], 'communication,': [1273], 'chemotaxis-related': [1276], 'genes,': [1277, 1281], '34': [1278], 'flagellar': [1279], 'assembly–related': [1280], '61': [1283], 'quorum': [1284, 2415], 'sensing–related': [1285], '(Guo': [1287], '2020;': [1290], 'Schikora': 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1833, 1969, 2263, 2287, 2403, 2547, 2573], 'Chevrette,': [1801], 'X.,': [1804, 2370, 2480, 2486, 2492], 'Schwalen,': [1805], 'Kautsar,': [1807], 'Suarez': [1809], 'Duran,': [1810], 'Los': [1813], 'Santos,': [1814], 'Kim,': [1816], 'U.,': [1817], 'Nave,': [1818], 'Dickschat,': [1820], 'Mitchell,': [1822, 2121], 'Shelest,': [1824], 'E.,': [1825, 1829, 1957, 2038], 'Breitling,': [1826], 'Takano,': [1828], 'Lee,': [1830], 'Weber,': [1832], 'Medema,': [1835], '4.0-improvements': [1839], 'chemistry': [1841], 'cluster': [1845], 'boundary': [1846], 'identification.': [1847], '45:W36-W41.': [1851], 'https://doi.org/10.1093/nar/gkx319': [1852], 'ScholarChan,': [1857], 'Lin,': [1859], 'B.': [1860, 2565], 'Mak,': [1862], '2.0:': [1869], 'Improved': [1870], 'classification': [1874], 'genes.': [1878, 2276], '49:9077-9096.': [1882], 'https://doi.org/10.1093/nar/gkab688': [1883], 'ScholarDelcher,': [1888], 'Bratke,': [1890], 'Powers,': [1892], 'Salzberg,': [1895], 'Identifying': [1898], 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[1996], 'ScholarEl-Gebali,': [2001], 'Mistry,': [2003], 'Bateman,': [2005], 'Eddy,': [2007], 'Luciani,': [2010], 'Potter,': [2012], 'Qureshi,': [2015], 'Richardson,': [2017], 'Salazar,': [2020], 'G.': [2021, 2451], 'Smart,': [2023], 'Sonnhammer,': [2025], 'E.': [2026, 2257, 2524, 2576], 'Hirsh,': [2029], 'Paladin,': [2031], 'Piovesan,': [2033], 'Tosatto,': [2035], 'C.': [2037, 2495], 'Finn,': [2040], 'D.': [2042], '2019.': [2043, 2050, 2452], 'Pfam': [2045], '47:D427-D432.': [2054], 'https://doi.org/10.1093/nar/gky995': [2055], 'ScholarGuo,': [2060], 'Q.,': [2061, 2073, 2338, 2446], 'Shi,': [2062, 2347], 'Zhang,': [2068, 2345, 2447, 2450], 'Xue,': [2072], 'Lai,': [2075], '2020.': [2077, 2496, 2577], 'biocontrol': [2079], 'agent': [2080], 'Streptomyces': [2081], 'pactum': [2082], 'increases': [2083], 'Pseudomonas': [2084], 'koreensis': [2085], 'populations': [2086], 'enhancing': [2091], 'chemotaxis': [2092], 'biofilm': [2094], 'formation.': [2095], 'Soil': [2096, 2510], 'Biol.': [2097, 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'isotope': [2302], 'probing': [2303], 'fractionation': [2305], 'quantitative': [2307], 'isopycnic': [2310], 'centrifugation': [2311], 'gradients.': [2312], 'Environ.': [2313], 'Microbiol.': [2314, 2471, 2616], '6:73-78.': [2315], 'https://doi.org/10.1046/j.1462-2920.2003.00536.x': [2316], 'ScholarLuo,': [2321], 'B.,': [2324, 2354], 'Huang,': [2329], 'Yuan,': [2331], 'He,': [2333], 'Pan,': [2337], 'Tang,': [2341], 'Yu,': [2351], 'Wang,': [2353, 2375, 2380, 2552], 'Han,': [2357], 'Cheung,': [2359], 'Yiu,': [2361], 'Peng,': [2363], 'Xiaoqian,': [2365], 'Liao,': [2369], 'Yang,': [2373, 2485, 2489], 'Lam,': [2377], 'SOAPdenovo2:': [2383], 'empirically': [2385], 'improved': [2386], 'memory-efficient': [2387], 'short-read': [2388], 'novo': [2390], 'assembler.': [2391], 'Gigascience': [2392], '1:18.': [2393], 'https://doi.org/10.1186/2047-217X-1-18': [2394], 'ScholarSchikora,': [2399], 'Schenk,': [2401], 'Hartmann,': [2405], '2016.': [2407], 'Beneficial': [2408], 'effects': [2409], 'sensing': 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