甘薯基因组NBS-LRR类抗病家族基因挖掘与分析

doi:10.3724/SP.J.1006.2020.94163

Abstract

Abstract:

The NBS-LRR gene families possess the most abundant resistance genes in plants. Members of the NBS-LRR gene families contain nucleotide-binding site (NBS) and leucine-leucine repeat (LRR) domains. The genome of sweet potato (Ipomoea batatas) cultivar has been sequenced but the genes have not been annotated yet. In this study, we predicted the exons of sweet potato genome and obtained the proteins sequences, which were then used to identify and analyze genes of NBS-LRR family. There were 379 genes within NBS-LRR family, amounting to 0.212% of the total genes of sweet potato. The number of the N type, NL type, CNL type, TNL type and PN type was 120, 103, 133, 22, and 1, respectively. All of the chromosomes had NBS-LRR family genes but varied in number and 60.9% of them were clustered. NBS-LRR genes included 15 conservative domains and the genes were conservative within N terminal domain. The results provide references for further studies on the function of NBS-LRR family genes and resistance breeding of sweet potato.

Key words: Ipomoea batatas, NBS-LRR, R gene, gene family, bioinformatics

HUANG Xiao-Fang,BI Chu-Yun,SHI Yuan-Yuan,HU Yun-Zhuo,ZHOU Li-Xiang,LIANG Cai-Xiao,HUANG Bi-Fang,XU Ming,LIN Shi-Qiang,CHEN Xuan-Yang. Discovery and analysis of NBS-LRR gene family in sweet potato genome[J].Acta Agronomica Sinica, 2020, 46(8): 1195-1207.

Figures/Tables 8

Table 1

Fig. 1

Table 2

Fig. 2

Fig. 3

Fig. 4

Fig. 5

Fig. 6

References 56

[1]	Staskawicz B J, Ausubel F M, Baker B J, Ellis J G, Jones J D. Molecular genetics of plant disease resistance. Science, 1995,268:661-667. doi: 10.1126/science.7732374 pmid: 7732374
[2]	李楠洋. 棉花抗黄萎病基因筛选及NBS-LRR类抗病基因GbaNA1功能研究. 中国农业科学院博士学位论文, 北京, 2017.
	Li N Y. Screening of Cotton Anti Verticillium Wilt Genes and Functional Study on NBS-LRR Resistance Gene GbaNA1. PhD Dissertation of Chinese Academy of Agricultural Sciences, Beijing, China, 2017 (in Chinese with English abstract).
[3]	Changkwian A, Venkatesh J, Lee J H, Han J W, Kwon J K, Siddique M I, Solomon A M, Choi G J, Kim E, Seo Y, Kim Y H, Kang B C. Physical localization of the root-knot nematode (Meloidogyne incognita) resistance locus Me7 in pepper(Capsicum annuum). Front Plant Sci, 2019,10:886. doi: 10.3389/fpls.2019.00886 pmid: 31354762
[4]	房卫平, 谢德意, 李志芳, 李武, 赵付安, 孙瑶, 段峥峥, 杨晓杰. NBS-LRR类抗病蛋白介导的植物抗病应答分子机制. 分子植物育种, 2015,13:469-474.
	Fang W P, Xie D Y, Li Z F, Li W, Zhao F A, Sun Y, Duan Z Z, Yang X J. Molecular mechanism on NBS-LRR proteins-mediated plant disease response. Mol Plant Breed, 2015, 13:469-474 (in Chinese with English abstract).
[5]	Jones J D G, Dangl J L. The plant immune system. Nature, 2006,444:323-329. doi: 10.1038/nature05286 pmid: 17108957
[6]	Hammond-Kosack K E, Parker J E. Deciphering plant-pathogen communication: fresh perspectives for molecular resistance breeding. Curr Opin Biotechnol, 2003,14:177-193. doi: 10.1016/s0958-1669(03)00035-1 pmid: 12732319
[7]	尹玲, 方辉, 黄羽, 卢江, 曲俊杰. 植物TIR-NB-LRR类型抗病基因各结构域的研究进展. 广西植物, 2017,37:186-190.
	Yin L, Fang H, Huang Y, Lu J, Qu J J. Research progress on domains of plant TIR-NB-LRR resistance genes. Guihaia, 2017,37:186-190 (in Chinese with English abstract).
[8]	陆建珍, 汪翔, 秦建军, 戴起伟, 易中懿. 我国甘薯种植业发展状况调查报告(2017年)——基于国家甘薯产业技术体系产业经济固定观察点数据的分析. 江苏农业科学, 2018,46(23):393-398.
	Lu J Z, Wang X, Qin J J, Dai Q W, Yi Z Y. Investigation report on the development of sweet potato cultivation in China (2017): Analysis based on the data of industrial economy fixed observation point of the national sweet potato industry technology system. Jiangsu Agric Sci, 2018,46(23):393-398 (in Chinese with English abstract).
[9]	赵永强, 张成玲, 孙厚俊, 徐振, 陈晓宇, 谢逸萍. 甘薯病毒病复合体(SPVD)对甘薯产量的影响. 西南农业学报, 2012,25:909-911.
	Zhao Y Q, Zhang C L, Sun H J, Xu Z, Chen X Y, Xie Y P. Effects of viruses (SPVD) on yield of sweet potato. Southwest China J Agric Sci, 2012,25:909-911 (in Chinese with English abstract).
[10]	赵冬兰, 唐君, 张安, 周志林, 曹清河, 戴习彬. 甘薯病毒病对不同基因型甘薯产量和品质的影响. 江西农业学报, 2018,30(11):62-65.
	Zhao D L, Tang J, Zhang A, Zhou Z L, Cao Q H, Dai X B. Effects of virus diseases on yield and quality of different sweet potato genotypes. Acta Agric Jiangxi, 2018,30(11):62-65 (in Chinese with English abstract).
[11]	屈满义, 查向东, 王钰, 杨金环, 蒋琳, 阮龙. 甘薯NBS-LRR类抗病基因同源序列的克隆、分析及数目研究. 热带作物学报, 2008,29:610-617.
	Qu M Y, Zha X D, Wang Y, Yang J H, Jiang L, Ruan L. Study on cloning, analysis and number of NBS-LRR resistance genes of sweet potato. Chin J Trop Crops, 2008,29:610-617 (in Chinese with English abstract).
[12]	Yang J, Moeinzadeh M H, Kuhl H, Helmuth J, Xiao P, Haas S, Liu G, Zheng J, Sun Z, Fan W, Deng G, Wang H, Hu F, Zhao S, Fernie A R, Boerno S, Timmermann B, Zhang P, Vingron M. Haplotype-resolved sweet potato genome traces back its hexaploidization history. Nat Plants, 2017,3:696-703. doi: 10.1038/s41477-017-0002-z pmid: 28827752
[13]	Ian K. Gene finding in novel genomes. BMC Bioinformatics, 2004,5:59. pmid: 15144565
[14]	Finn R D, Bateman A, Clements J, Coggill P, Eberhardt R Y, Eddy S R, Heger A, Hetherington K, Holm L, Mistry J, Sonnhammer E L, Tate J, Punta M. Pfam: the protein families database. Nucleic Acids Res, 2014,42:222-230.
[15]	Madeira F, Park Y M, Lee J, Buso N, Gur T, Madhusoodanan N, Basutkar P, Tivey A R N, Potter S C, Finn R D, Lopez R. The EMBL-EBI search and sequence analysis tools APIs in 2019. Nucleic Acids Res, 2019,47:636-641.
[16]	Eddy S R. Profile Hidden Markov Models. Bioinformatics, 1998,14:755-763. pmid: 9918945
[17]	Pottter S C, Luciani A, Eddy S R, Park Y, Lopez R, Finn R D. Web server issue. Nucleic Acids Res, 2018,46:200-204.
[18]	Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R, Genome Project Data Processing, Subgroup. The sequence alignment/map format and SAMtools. Bioinformatics, 2009,25:2078-2079. doi: 10.1093/bioinformatics/btp352 pmid: 19505943
[19]	Li H. A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data. Bioinformatics. 2011,27:2987-2993. doi: 10.1093/bioinformatics/btr509 pmid: 21903627
[20]	Brendolise C, Montefiori M, Dinis R, Peeters N, Storey R D, Rikkerink E H. A novel hairpin library-based approach to identify NBS-LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana. Plant Methods, 2017,13:32. doi: 10.1186/s13007-017-0181-7 pmid: 28465712
[21]	Sievers F, Wilm A, Dineen D, Gibson T J, Karplus K, Li W Z, Lopez R, McWilliam H, Remmert M, Söding J, Thompson J D, Higgins D G. Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol Syst Biol, 2011,7:539. doi: 10.1038/msb.2011.75 pmid: 21988835
[22]	Marchler-Bauer A, Bryant S H. CD-search: protein domain annotations on the fly. Nucleic Acids Res, 2004,32:327-331.
[23]	Marchler-Bauer A, Lu S N, Anderson J B, Chitsaz F, Derbyshire M K, De Weese-Scott C, Fong J H, Geer L Y, Geer R C, Gonzales N R, Gwadz M, Hurwitz D I, Jackson J D, Ke Z, Lanczycki C J, Lu F, Marchler G H, Mullokandov M, Omelchenko M V, Robertson C L, Song J S, Thanki N, Yamashita R A, Zhang D C, Zhang N G, Zheng C J, Bryant S H. CDD: a conserved domain database for the functional annotation of proteins. Nucleic Acids Res, 2011,39:225-229. doi: 10.1093/nar/gkq769 pmid: 20823090
[24]	Marchler-Bauer A, Derbyshire M K, Gonzales N R, Lu S N, Chitsaz F, Geer L Y, Geer R C, He J, Gwadz M, Hurwitz D I, Lanczycki C J, Lu F, Marchler G H, Song J S, Thanki N, Wang Z X, Yamashita R A, Zhang D C, Zheng C J, Bryant S H. CDD: NCBI’s conserved domain database. Nucleic Acids Res, 2015,43:222-226.
[25]	Marchler-Bauer A, Bo Y, Han L Y, He J N, Lanczycki C J, Lu S N, Chitsaz F, Derbyshire M K, Geer R C, Gonzales N R, Gwadz M, Hurwitz D I, Lu F, Marchler G H, Song J S, Thanki N, Wang Z X, Yamashita R A, Zhang D C, Zheng C J, Geer L Y, Bryant S H. CDD/SPARCLE: functional classification of proteins via subfamily domain architectures. Nucleic Acids Res, 2017,45:200-203.
[26]	Quevillon E, Silventoinen V, Pillai S, Harte N, Mulder N, Apweiler R, Lopez R. InterProScan: protein domains identifier. Nucleic Acids Res, 2005,33:116-120.
[27]	Barragan C A, Wu R, Kim S T, Xi W Y, Habring A, Hagmann J, Van de Weyer A L, Zaidem M, Ho W W H, Wang G, Bezrukov I, Weigel D, Chae E. RPW8/HR repeats control NLR activation in Arabidopsis thaliana. PLoS Genet, 2019,15:e1008313. doi: 10.1371/journal.pgen.1008313 pmid: 31344025
[28]	刘云飞, 万红建, 李志邈, 叶青静, 王荣青, 阮美颖, 姚祝平, 周国治, 韦艳萍, 杨悦俭. 植物NBS-LRR抗病基因的结构、功能、进化起源及其应用. 分子植物育种, 2014,12:377-389.
	Liu Y F, Wan H J, Li Z M, Ye Q J, Wang R Q, Ruan M Y, Yao Z P, Zhou G Z, Wei Y P, Yang Y J. The structure, function, evolutional origin and application of plant NBS-LRR resistance genes. Mol Plant Breed, 2014,12:377-389 (in Chinese with English abstract).
[29]	Lupas A, Dyke M V, Stock J, Predicting coiled coils from protein sequences. Science, 1991,252:1162-1164. doi: 10.1126/science.252.5009.1162 pmid: 2031185
[30]	McDonnell A V, Jiang T, Keating A E, Berger B. Paircoil2: improved prediction of coiled coils from sequence. Bioinformatics, 2006,22:356-358. pmid: 16317077
[31]	Jupe F, Pritchard L, Etherington G J, MacKenzie K, Cock P J, Wright F, Sharma S K, Bolser D, Bryan G J, Jones J D, Hein I. Identification and localisation of the NB-LRR gene family within the potato genome. BMC Genomics, 2012,13:75. pmid: 22336098
[32]	蒋卉, 张晶, 符真珠, 董晓宇, 王慧娟, 李艳敏, 高杰, 王利民, 张和臣. 蝴蝶兰NBS-LRR家族基因挖掘和生物信息学分析. 分子植物育种, 2018,16:2786-2794.
	Jiang H, Zhang J, Fu Z Z, Dong X Y, Wang H J, Li Y M, Gao J, Wang L M, Zhang H C. Mining and bioinformatics analysis of NBS-LRR gene family in phalaenopsis. Mol Plant Breed, 2018,16:2786-2794 (in Chinese with English abstract).
[33]	Bailey T L, Williams N, Misleh C, Li W W. MEME: discovering and analyzing DNA and protein sequence motifs. Nucleic Acids Res, 2006,34:369-373.
[34]	Chen C J, Chen H, He Y H, Xia R. TBtools, a Toolkit for Biologists integrating various biological data handling tools with a user-friendly interface. BioRxiv, 2018. doi: https://doi.org/10.1101/289660. doi: 10.1101/2020.06.27.175430 pmid: 32637963
[35]	Castresana J. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol, 2000,17:540-552. doi: 10.1093/oxfordjournals.molbev.a026334 pmid: 10742046
[36]	Talavera G, Castresana J. Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst Biol, 2007,56:564-577. doi: 10.1080/10635150701472164 pmid: 17654362
[37]	Waterhouse A M, Procter J B, Martin D M A, Clamp M, Barton G J. Jalview Version 2: a multiple sequence alignment editor and analysis workbench. Bioinformatics, 2009,25:1189-1191. doi: 10.1093/bioinformatics/btp033 pmid: 19151095
[38]	Troshin P V, Procter J B, Barton G J. Java bioinformatics analysis web services for multiple sequence alignment—JABAWS: MSA. Bioinformatics, 2011,27:2001-2002. doi: 10.1093/bioinformatics/btr304 pmid: 21593132
[39]	Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol Biol Evol, 2018,35:1547-1549. doi: 10.1093/molbev/msy096 pmid: 29722887
[40]	Hao W, Collier S M, Moffett P, Chai J. Structural basis for the interaction between the potato virus X resistance protein (Rx) and its cofactor Ran GTPase-activating protein 2 (RanGAP2). J Biol Chem, 2013,288:35868-35876. doi: 10.1074/jbc.M113.517417 pmid: 24194517
[41]	Tarr D E, Alexander H M. TIR-NBS-LRR genes are rare in monocots: evidence from diverse monocot orders. BMC Res Notes, 2009,2:197. doi: 10.1186/1756-0500-2-197 pmid: 19785756
[42]	Lozano R, Hamblin M T, Prochnik S, Jannink J L. Identification and distribution of the NBS-LRR gene family in the Cassava genome. BMC Genomics, 2015,16:360. doi: 10.1186/s12864-015-1554-9 pmid: 25948536
[43]	Zhou T, Wang Y, Chen J Q, Araki H, Jing Z, Jiang K, Shen J, Tian D. Genome-wide identification of NBS genes in japonica rice reveals significant expansion of divergent non-TIR NBS-LRR genes. Mol Genet Genomics, 2004,271:402-415. doi: 10.1007/s00438-004-0990-z pmid: 15014983
[44]	Meyers B C, Kozik A, Griego A, Kuang H, Michelmore R W. Genome-wide analysis of NBS-LRR-encoding genes in Arabidopsis. Plant Cell, 2003,15:809-834. doi: 10.1105/tpc.009308 pmid: 12671079
[45]	刘小芳, 袁欣, 聂迎彬, 张晶. 乌拉尔图小麦NBS-LRR家族生物信息学分析. 分子植物育种, 2018,16:7587-7597.
	Liu X F, Yuan X, Nie Y B, Zhang J. Bioinformatics Analysis of NBS-LRR gene family in Triticum urartu. Mol Plant Breed, 2018,16:7587-7597 (in Chinese with English abstract).
[46]	王岩, 李兆阳, 唐心龙, 卢姗, 许鹏, 张静, 方奎, 席景会. 拟南芥基因组NBS-LRR类基因家族的生物信息学分析. 中国农学通报, 2009,25(15):40-45.
	Wang Y, Li Z Y, Tang X L, Lu S, Xu P, Zhang J, Fang K, Xi J H. Bioinformatic analysis of the NBS-LRR gene family in Arabidopsis thaliana. Chin Agric Sci Bull, 2009,25(15):40-45 (in Chinese with English abstract).
[47]	Holub E B. The arms race is ancient history in Arabidopsis, the wildflower. Nat Rev Genet, 2001,2:516-527. doi: 10.1038/35080508 pmid: 11433358
[48]	Liu Z C, Xie J M, Wang H P, Zhong X H, Li H L, Yu J H, Kang J G. Identification and expression profiling analysis of NBS-LRR genes involved in Fusarium oxysporum f. sp. conglutinans resistance in cabbage. 3 Biotech, 2019,9:202. doi: 10.1007/s13205-019-1714-8 pmid: 31065502
[49]	Kohler A, Rinaldi C, Duplessis S, Baucher M, Geelen D, Duchaussoy F, Meyers B C, Boerjan W, Martin F. Genome-wide identification of NBS resistance genes in Populus trichocarpa. Plant Mol Biol, 2008,66:619-636. doi: 10.1007/s11103-008-9293-9 pmid: 18247136
[50]	Ahlenstiel G, Lozano R, Ponce O, Ramirez M, Mostajo N, Orjeda G. Genome-wide identification and mapping of NBS-encoding resistance genes in Solanum tuberosum group phureja. PLoS One, 2012,7:e34775. doi: 10.1371/journal.pone.0034775 pmid: 22493716
[51]	Li T G, Wang B L, Yin C M, Zhang D D, Wang D, Song J, Zhou L, Kong Z Q, Klosterman S J, Li J J, Adamu S, Liu T L, Subbarao K V, Chen J Y, Dai X F. The Gossypium hirsutum TIR-NBS-LRR gene GhDSC1 mediates resistance against verticillium wilt. Mol Plant Pathol, 2019,20:857-876. doi: 10.1111/mpp.12797 pmid: 30957942
[52]	Meyers B C, Morgante M, Michelmore R W. TIR-X and TIR-NBS proteins: two new families related to disease resistance TIR-NBS-LRR proteins encoded in Arabidopsis and other plant genomes. Plant J, 2002,32:77-92. doi: 10.1046/j.1365-313x.2002.01404.x pmid: 12366802
[53]	Wu L, Hickson I D. The Bloom’s syndrome helicase suppresses crossing over during homologous recombination. Nature, 2003,426:870-874. doi: 10.1038/nature02253 pmid: 14685245
[54]	Lakatos L, Csorba T, Pantaleo V, Chapman E J, Carrington J C, Liu Y P, Dolja V V, Calvino L F, López-Moya J J, Burgyán J. Small RNA binding is a common strategy to suppress RNA silencing by several viral suppressors. EMBO J, 2006,25:2768-2780. doi: 10.1038/sj.emboj.7601164 pmid: 16724105
[55]	López C E, Zuluaga A P, Cooke R, Delseny M, Tohme J, Verdie V. Isolation of resistance gene candidates (RGCs) and characterization of an RGC cluster in cassava. Mol Genet Genomics, 2003,269:658-671. doi: 10.1007/s00438-003-0868-5 pmid: 12827500
[56]	Wu S, Lau K H, Cao Q H, Hamilton J P, Sun H H, Zhou C X, Eserman L A, Gemenet D C, Olukolu B A, Wang H Y, Crisovan E, Godden G T, Jiao C, Wang X, Kitavi M, anrique-Carpintero N, Vaillancourt B, Wiegert-Rininger K, Yang X S, Bao K, Schaff J, Wolfgang J K, Gruneberg A K, Ghislain M, Ma D, Jiang J M, Mwanga R O M, Leebens-Mack J, Lachlan J M, Coin G, Yencho G C, Buell C R, Fei Z J. Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement. Nat Commun, 2018,9:4580. pmid: 30389915

Metrics

Viewed

Full text

Abstract

Cited

Shared

Discussed

Comments

Recommended 0

No Suggested Reading articles found!

染色体 Chromosome	基因 Gene	基因簇/基因数目 Gene cluster/gene number	最大基因簇 Maximal gene cluster	百分比 Percentage (%)
1	26	4/14	4	53.8
2	28	4/13	4	46.4
3	11	2/7	4	63.6
4	22	5/15	5	68.2
5	18	4/13	6	72.2
6	18	2/4	2	22.2
7	53	16/41	4	77.4
8	29	4/9	3	31.0
9	35	8/30	9	85.7
10	40	12/30	4	75.0
11	3	1/2	2	66.7
12	26	5/14	4	53.8
13	54	11/33	9	61.1
14	9	0/0	0	0
15	7	3/6	2	85.7
总数Total	379	81/231		60.9

Discovery and analysis of NBS-LRR gene family in sweet potato genome

RichHTML371

PDF

Abstract

Cite this article

share this article

Figures/Tables 8

References 56

Related Articles 15

Metrics

Comments

Recommended 0

项目 Item	预测结构域 Predicted domain		代码 Code		甘薯 Ib		木薯^a Me ^a		水稻^b Os ^b		拟南芥^c At ^c		乌拉尔图小麦^d Tu ^d
N类型N type	NB		N		118		14		45		1		270
			NCCC		1		—		—		—		—
	NB NB		NN		1		—		—		—		—
NL类型NL type	NB LRR		NL		81		52		301		6		31
			NLN		1		—		—		—		—
项目 Item		预测结构域 Predicted domain		代码 Code		甘薯 Ib		木薯^a Me ^a		水稻^b Os ^b		拟南芥^c At ^c		乌拉尔图小麦^d Tu ^d
				NLC		1		—		—		—		—
		NB LRR LRR		NLL		16		—		—		—		19
				NLLC		1		—		—		—		—
		NB LRR LRR LRR		NLLL		1		—		—		—		1
		NB NB LRR		NNL		2		—		3		—		1
CNL类型CNL type		CC NB		CN		22		11		7		5		55
				C_XN		29		—		—		—		—
		CC NB LRR		CNL		15		117		175		51		84
				C_XNL		37		—		—		—		—
				CNCL		1		—		—		—		—
				CNLC		1		—		—		—		—
				C_XNLC		1		—		—		—		—
				LC_XNL		1		—		—		—		—
		CC NB LRR LRR		CNLL		4		—		—		—		8
				C_XNLL		5		—		—		—		—
		CC NB LRR LRR LRR		C_XNLLL		1		—		—		—		1
		CC NB NB LRR LRR		CNNLL		1		—		—		—		—
		CC CC NB		C_XCN		4		—		—		—		—
				C_XC_XN		1		—		—		—		—
		CC CC NB LRR		CCNL		2		—		—		—		—
				C_XCNL		6		—		—		—		—
		CC CC NB LRR LRR		C_XCNLL		1		—		—		—		—
		CC CC CC CC NB LRR LRR		CCCCNLL		1		—		—		—		—
TNL类型TNL type		TIR NB		TN		9		5		3		23		0
		TIR NB NB		TNN		1		—		—		—		—
		TIR NB LRR		TNL		7		29		—		88		0
		TIR NB LRR LRR		TNLL		3		—		—		—		—
		TIR NB LRR LRR LRR		TNLLL		2		—		—		—		—
PN类型PN type		RPW8 NB		PN		1		—		—		—		—
其他Other						—		99		1		33		15
总数Total						379		327		535		207		485
基因组中基因总数 Total number of genes in the genome						178458		30666		37544		25498		32265
基因组大小Genome size (Mb)						633.42		~760		389		125		3747.05

[1]	CHEN Song-Yu, DING Yi-Juan, SUN Jun-Ming, HUANG Deng-Wen, YANG Nan, DAI Yu-Han, WAN Hua-Fang, QIAN Wei. Genome-wide identification of BnCNGC and the gene expression analysis in Brassica napus challenged with Sclerotinia sclerotiorum and PEG-simulated drought [J]. Acta Agronomica Sinica, 2022, 48(6): 1357-1371.
[2]	WU Yan-Fei, HU Qin, ZHOU Qi, DU Xue-Zhu, SHENG Feng. Genome-wide identification and expression analysis of Elongator complex family genes in response to abiotic stresses in rice [J]. Acta Agronomica Sinica, 2022, 48(3): 644-655.
[3]	JIN Rong, JIANG Wei, LIU Ming, ZHAO Peng, ZHANG Qiang-Qiang, LI Tie-Xin, WANG Dan-Feng, FAN Wen-Jing, ZHANG Ai-Jun, TANG Zhong-Hou. Genome-wide characterization and expression analysis of Dof family genes in sweetpotato [J]. Acta Agronomica Sinica, 2022, 48(3): 608-623.
[4]	DONG Yan-Kun, HUANG Ding-Quan, GAO Zhen, CHEN Xu. Identification, expression profile of soybean PIN-Like (PILS) gene family and its function in symbiotic nitrogen fixation in root nodules [J]. Acta Agronomica Sinica, 2022, 48(2): 353-366.
[5]	ZHAO Hai-Han, LIAN Wang-Min, ZHAN Xiao-Deng, XU Hai-Ming, ZHANG Ying-Xin, CHENG Shi-Hua, LOU Xiang-Yang, CAO Li-Yong, HONG Yong-Bo. Genetic dissection of the bacterial blight disease resistance in super hybrid rice RILs using genome-wide association study [J]. Acta Agronomica Sinica, 2022, 48(1): 121-137.
[6]	JIAN Hong-Ju, SHANG Li-Na, JIN Zhong-Hui, DING Yi, LI Yan, WANG Ji-Chun, HU Bai-Geng, Vadim Khassanov, LYU Dian-Qiu. Genome-wide identification and characterization of PIF genes and their response to high temperature stress in potato [J]. Acta Agronomica Sinica, 2022, 48(1): 86-98.
[7]	WANG Yan-Peng, LING Lei, ZHANG Wen-Rui, WANG Dan, GUO Chang-Hong. Genome-wide identification and expression analysis of B-box gene family in wheat [J]. Acta Agronomica Sinica, 2021, 47(8): 1437-1449.
[8]	SONG Tian-Xiao, LIU Yi, RAO Li-Ping, Soviguidi Deka Reine Judesse, ZHU Guo-Peng, YANG Xin-Sun. Identification and expression analysis of cell wall invertase IbCWIN gene family members in sweet potato [J]. Acta Agronomica Sinica, 2021, 47(7): 1297-1308.
[9]	HUANG Ning, HUI Qian-Long, FANG Zhen-Ming, LI Shan-Shan, LING Hui, QUE You-Xiong, YUAN Zhao-Nian. Identification, localization and expression analysis of beta-carotene isomerase gene family in sugarcane [J]. Acta Agronomica Sinica, 2021, 47(5): 882-893.
[10]	QIN Tian-Yuan, LIU Yu-Hui, SUN Chao, BI Zhen-Zhen, LI An-Yi, XU De-Rong, WANG Yi-Hao, ZHANG Jun-Lian, BAI Jiang-Ping. Identification of StIgt gene family and expression profile analysis of response to drought stress in potato [J]. Acta Agronomica Sinica, 2021, 47(4): 780-786.
[11]	LI Peng, LIU Che, SONG Hao, YAO Pan-Pan, SU Pei-Lin, WEI Yao-Wei, YANG Yong-Xia, LI Qing-Chang. Identification and analysis of non-specific lipid transfer protein family in tobacco [J]. Acta Agronomica Sinica, 2021, 47(11): 2184-2198.
[12]	ZHENG Qing-Lei,YU Chen-Jing,YAO Kun-Cun,HUANG Ning,QUE You-Xiong,LING Hui,XU Li-Ping. Cloning and expression analysis of sugarcane Fe/S precursor protein gene ScPetC [J]. Acta Agronomica Sinica, 2020, 46(6): 844-857.
[13]	SHI Li-Jie,JIANG Cong-Cong,WANG Fang-Mei,YANG Ping,FENG Zong-Yun. Genome-wide characterization and transcriptional analysis of the protein disulfide isomerase-like genes in barley (Hordeum vulgare) [J]. Acta Agronomica Sinica, 2019, 45(9): 1365-1374.
[14]	YAO Jun-Yue,HUA Ying-Peng,ZHOU Ting,WANG Tao,SONG Hai-Xing,GUAN Chun-Yun,ZHANG Zhen-Hua. Identification and function analysis of AVP1, VHA-a2, and VHA-a3 genes in Brassica napus L. [J]. Acta Agronomica Sinica, 2019, 45(8): 1146-1157.
[15]	SUN Ting-Ting,WANG Wen-Ju,LOU Wen-Yue,LIU Feng,ZHANG Xu,WANG Ling,CHEN Yu-Feng,QUE You-Xiong,XU Li-Ping,LI Da-Mei,SU Ya-Chun. Cloning and expression analysis of sugarcane lipoxygenase gene ScLOX1 [J]. Acta Agronomica Sinica, 2019, 45(7): 1002-1016.