|
|
|
| Identification and Expression Analyses of bHLH Gene Family Members in Transcriptome of Pinus massoniana Seedlings |
| SHANG Xian-Wen1,2, FAN Fu-Hua1,2*, ZHOU Zi-Jing1,2, QIN Hui-Juan1,2, WANG Cong-Hui1,2, DING Gui-Jie1,2*, TAN Jian-Hui3 |
1. Institute for Forestry Resources & Environment of Guizhou/Key Laboratory of Forest Cultivation in Plateau Mountain of Guizhou,Guizhou University,Guiyang 550025,China;
2. College of Forestry,Guizhou University,Guiyang 550025,China;
3. Guangxi Zhuang Autonomous Region Forestry Research Institue,Nanning 530002 |
|
|
|
|
Abstract Plant basic helix-loop-helix (bHLH) transcription factors are the second largest class of transcription factors in eukaryotes,and play important roles in plant growth,secondary metabolism and stress response. In this study,bHLH family genes were screened by transcriptome sequencing of root samples of Pinus massoniana seedlings. The subcellular location,conservative motifs,expression pattern and phylogenetic analyses of these genes were performed by bioinformatics methods. The results showed that 64 bHLH family genes were identified from the transcriptome of Pinus massoniana,and these genes were predicted to be mainly located in the nucleus. Motif1 and motif2 appeared most frequently in conserved motifs. Under the condition of low-phosphorus stress,PmbHLH01/09/27/29/32/39/41 showed significantly differential expression,suggesting that they might be involved in phosphorus stress. These results provide a reference for further revealing the biological function of bHLH transcription factors in response to phosphorus change of P. massoniana.
|
|
Received: 29 June 2020
|
|
|
|
Corresponding Authors:
*fhfan1@gzu.edu.cn;gjdinggzu@126.com
|
|
|
|
[1] 丁贵杰,吴协保,齐新民,等.2002.马尾松纸浆材林经营模型系统及优化栽培模式研究[J].林业科学,38(05):7-13.
(Ding G J,Wu X B,Wang P C,et al.2002.A study on management model system and optimum cultivation patterns ofPinus massonianafor pulpwood stand[J].Scientia Silvae Sincae,38(5):7-13.)
[2] 冯磊,石元豹,汪贵斌,等.2019.银杏bHLH家族转录因子生物信息学及表达分析[J].江苏农业学报,35(02):400-411.
(Feng L,Shi Y B,Wang G B,et al.2019.Bioinformatics and expression analysis of transcription factors of ginkgo bHLH family[J].Jiangsu Journal of Agricultural Sciences,35(2):400-411.)
[3] 何洁,顾秀容,魏春华,等.2016.西瓜bHLH转录因子家族基因的鉴定及其在非生物胁迫下的表达分析[J].园艺学报,43(02):281-294.
(He J,Gu X R,Wei C H,et al.2016.Identification and expression analysis under abiotic stresses of the bHLH transcription factor gene family in watermelon[J].Acta Horticulturae Sinica,43(2):281-294.)
[4] 李慧平,王庆竹,汤纬玮,等.2018.马尾松PmMYB169基因亚细胞定位及其超表达烟草低磷抗性分析[J].华中农业大学学报,37(04):58-64.
(Li H P,Wang Q Z,Tang W W,et al.2018.Subcellular localization and low phosphorus tolerance analyses of masson pine (Pinus massoniana)PmMYB169gene in over-expression transgenic tobacco[J].Journal of Huazhong Agricultural University,37(04):58-64.)
[5] 李昕晏.2019.甜菜耐盐相关ARF/NAC/bHLH转录因子筛选鉴定及表达研究[D].硕士学位论文,哈尔滨工业大学,导师:崔杰,pp.52-53.
(Li X Y.2019.Screening and expression of salt-related ARF/NAC/bHLH transcription factors in sugar beet[D].Thesis for M.S.,Harbin Institute of Technology,Supervisor:Cui J,pp.52-53.)
[6] 刘静,王翠平,朱强,等.2020.黑果枸杞bHLH转录因子家族的生物信息学分析[J].分子植物育种,18(14):4615-4623.
(Liu J,Wang C P,Zhu Q,et al.2020.Bioinformatics analysis of bHLH transcription factor family inLycium ruthenicumMurr[J].Molecular Plant Breeding,18(14):4615-4623.)
[7] 孟富宣,周军,辛培尧,等.2013.云南红皮梨bHLH转录因子的生物信息学分析[J].基因组学与应用生物学,32(05):652-659.
(Meng F X,Zhou J,Xin P Y,et al.2013.Bioinformatics analysis of bHLH transcription factor in Yunnan red skin pear (Pyrus pyrifoliaNaki)[J].Genomics and Applied Biology,32(5):652-659.)
[8] 王庆竹.2018.马尾松磷转运相关转录因子PmWRKY164的克隆及功能分析[D].硕士学位论文,贵州大学,导师:文晓鹏,pp.30-32.
(Wang Q Z.2018.Cloning and function analysis of phosphorus transport-related transcription factor PmWRKY164 inPinus massoniana[D].Thesis for M.S.,Guizhou University,Supervisor:Wen X P,pp.30-32.)
[9] 王庆竹,尚先文,汤纬玮,等.2019.马尾松PmWRKY164基因的克隆及耐低磷功能分析[J].农业生物技术学报,27(6):1016-1024.
(Wang Q Z,Shang X W,Tang W W,et al.2019.Cloning and low phosphorus tolerance function analysis of PmWRKY164 fromPinus massoniana[J].Journal of Agricultural Biotechnology,27(6):1016-1024.)
[10] 徐向华,丁贵杰.2006.马尾松适应低磷胁迫的生理生化响应[J].林业科学,42(09):24-28.
(Xu X H,Ding G J.2006.Physiological and biochemical responses ofPinus massonianato low phosphorus stress[J].Scientia Silvae Sincae,42(9):24-28.)
[11] 徐秀荣,杨克彬,王思宁,等.2019.毛竹bHLH转录因子的鉴定及其在干旱和盐胁迫条件下的表达分析[J].植物科学学报,37(05):610-620.
(Xiu X R,Yang K B,Wang S N,et al.2019.Identification of bHLH transcription factors in moso bamboo (Phyllostachys edulis) and their expression analysis under drought and salt stress[J].Plant Science Journal,37(5):610-620.)
[12] 闫艳,王希,周珂辉,等.2019.西洋参bHLH转录因子家族生物信息学分析[J].吉林农业大学学报,41(03):316-323.
(Yan Y,Wang X,Zhou K H,et al.2019.Bioinformatics analysis of bHLH transcription factor family inPanax quinquefolius[J].Journal of Jilin Agricultural University,41(3):316-323.)
[13] 张新明,李华兴,刘远金.2000.广东省主要母质发育水稻土对磷的吸附特性[J].应用生态学报,11(04):553-556.
(Zhang X M,Li X H,Liu Y J.2000.Phosphate adsorption characteristics of paddy soils derived from main parent materials in Guangdong province[J].Chinese Jouranl of Applied Ecology,11(4):553-556.)
[14] Arnaud N,Girin T,Sorefan K,et al.2010.Gibberellins control fruit patterning inArabidopsis thaliana[J].Genes & Development,24(19):2127-2132.
[15] Atchley W R,Zhao J.2007.Molecular architecture of the DNA-binding region and its relationship to classification of basic helix-loop-helix proteins[J].Molecular Biology and Evolution,24(1):192-202.
[16] Bailey P C,Martin C,Toledo-Ortiz G,et al.2003.Update on the basic helix-loop-helix transcription factor gene family inArabidopsis thaliana[J].The Plant Cell,15(11):2497-2502.
[17] Cai H S,Tian S,Dong H S.2012.Large scale in silico identification of MYB family genes from wheat expressed sequence tags[J].Molecular Biotechnology,52(2):184-192.
[18] Chang W H,Lai A G.20182018.Genome-wide analyses of the bHLH superfamily in crustaceans:Reappraisal of higher-order groupings and evidence for lineage-specific duplications[J].Royal Society Open Science,5:172433.http://dx.
[19] Chen Z H,Nimmo G A,Jenkins G I,et al.2007.bHLH32 modulates several biochemical and morphological processes that respond to Pi starvation inArabidopsis[J].The Biochemical Journal,405(1):191-198.
[20] Cui X,Wang Y X,Liu Z W,et al.2018.Transcriptome-wide identification and expression profile analysis of the bHLH family genes inCamellia sinensis[J].Function & Integrative Genomics,18(5):489-503.
[21] 马尾松苗期转录组bHLH基因家族成员鉴定及表达分析Identification and Expression Analyses of bHLH Gene Family Members in Transcriptome of Pinus massoniana Seedlings
[22] Fan F,Cui B,Zhang T,et al.2014.The temporal transcriptomic response ofPinus massonianaseedlings to phosphorus deficiency[J].PLOS ONE,9(8):e105068.
[23] Fan F,Wang Q Z,Wen X P,et al.2020.Transcriptome-wide identification and expression profiling ofPinus massonianaMYB transcription factors responding to phosphorus deficiency[J].Journal of Forestry Research,31(3):909-919.
[24] Guo A,Chen X,Gao G,et al.2008.PlantTFDB:A comprehensive plant transcription factor database[J].Nucleic Acids Research,36(suppl_1):D966-D969.
[25] Heisler M G,Atkinson A,Bylstra Y H,et al.2001.SPATULA,a gene that controls development of carpel margin tissues inArabidopsis,encodes a bHLH protein[J].Development (Cambridge,England),128(7):1089-1098.
[26] Hu B,Chu C.2011.Phosphate starvation signaling in rice[J].Plant Signaling & Behavior,2011,6(7):927-929.
[27] Hudson K A,Hudson M E.2015.A classification of basic helix-loop-helix transcription factors of soybean[J].International Journal of Genomics.DOI.10.1155/2015/603182.
[28] Huq E,Quail P H.2002.PIF4,a phytochrome-interacting bHLH factor,functions as a negative regulator of phytochrome B signaling inArabidopsis[J].The EMBO Journal,21(10):2441-2450.
[29] Kondou Y,Nakazawa M,Kawashima M,et al.2008.RETARDED GROWTH OF EMBRYO1,a new basic helix-loop-helix protein,expresses in endosperm to control embryo growth[J].Plant Physiology,147(4):1924-1935.
[30] Ledent V,Vervoort M.2001.The basic helix-loop-helix protein family:Comparative genomics and phylogenetic analysis[J].Genome research,11(5):754-770.
[31] Li H,Flachowsky H,Fischer T C,et al.2007.Maize Lc transcription factor enhances biosynthesis of anthocyanins,distinct proanthocyanidins and phenylpropanoids in apple (Malus domesticaBorkh.)[J].Planta,226(5):1243-1254.
[32] Li X,Duan X,Jiang H,et al.2006.Genome-wide analysis of basic/helix-loop-helix transcription factor family in rice andArabidopsis[J].Plant Physiology,141(4):1167-1184.
[33] Massari M E,Murre C.2000.Helix-loop-helix proteins:Regulators of transcription in eucaryotic organisms[J].Molecular and Cellular Biology,20(2):429-440.
[34] Murre C,Mccaw P S,Baltimore D.1989.A new DNA binding and dimerization motif in immunoglobulin enhancer binding,daughterless,MyoD,and myc proteins[J].Cell,56(5):777-783.
[35] Pal S,Kisko M,Dubos C,et al.2017.TransDetect identifies a new regulatory module controlling phosphate accumulation[J].Plant Physiology,175(2):916-926.
[36] Sailsbery J K,Dean R A.2012.Accurate discrimination of bHLH domains in plants,animals,and fungi using biologically meaningful sites[J].BMC Evolutionary Biology,12(154):1471-2148 .
[37] Song S,Qi T,Fan M,et al.2013.The bHLH subgroupⅢd factors negatively regulate jasmonate-mediated plant defense and development[J].PLOS Genetics,9(7):e10036537.
[38] Toledo-Ortiz G,Huq E,Quail P H.2003.TheArabidopsisbasic/helix-loop-helix transcription factor family[J].The Plant Cell,15(8):1749-1770.
[39] Xu H,Wang N,Liu J,et al.2017.The molecular mechanism underlying anthocyanin metabolism in apple using theMdMYB16andMdbHLH33genes[J].Plant Molecular Biology,94(1-2):149-165.
[40] Yang T,Hao L,Yao S,et al.2016.TabHLH1,a bHLH-type transcription factor gene in wheat,improves plant tolerance to Pi and N deprivation via regulation of nutrient transporter gene transcription and ROS homeostasis[J].Plant Physiologyand Biochemistry,104:99-113.
[41] Yi K,Menand B,Bell E,et al.2010.A basic helix-loop-helix transcription factor controls cell growth and size in root hairs[J].Nature Genetics,42(3):108-264.
[42] Zhang H,Hedhili S,Montiel G,et al.2011.The basic helix-loop-helix transcription factor CrMYC2 controls the jasmonate-responsive expression of the ORCA genes that regulate alkaloid biosynthesis inCatharanthus roseus[J].Plant Journal,67(1):61-71. |
|
|
|
