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蛇足石杉(Huperzia serrata (Thunb.) Trevis)是石杉科植物,其含有石杉碱等成分具有药用价值。但该植物生长缓慢、栽培不稳定、生物产量低。光周期(Circadian rhythm)基因对于植物的生长发育非常关键。本研究通过对蛇足石杉的根、茎、叶、芽和孢子进行转录组测序,得到82 238个unigenes,平均长度为958 bp,本地blast显示本实验转录组测序结果与之前报道的结果相似性高、结果可靠。通过比较和分析差异基因,进一步在光周期通路中筛选出294个基因,构建了22个显著差异表达基因的相互作用网络并进行分析,指出潜在的关键基因为COP1、LHY、PIF3及CDF1等。这些结果为深入开展蛇足石杉孢子对光线的反应及环境适应等研究提供了理论依据。
Abstract：Huperzia serrata(Thunb.) Trevis.is a plant of the family Lycopodiaceae.Due to it contains huperzine and other components,it has medical value.However,slow growth,unstable and unproductive culture of this plant and low yield from industrial chemical synthesis limit their production.The circular rhythm gene is very important to the growth and development of plants.In this study,82 238 unigenes with an average length of 958 bp were obtained by sequencing the roots,stems,leaves,buds and spores of Huperzia serrata.The local blast showed that the results of the sequencing of the transcriptome of this experiment were similar to those reported earlier and the results were reliable.By comparing and analyzing the differentially expressed genes,294 genes were further screened out in the photoperiod pathway,and the interaction network of 22 significant difference expression genes was constructed and analyzed,and the potential key genes were COP1,LHY,PIF3 and CDF1.The results provide theory evidences for further investigation of their environmental adaptation.
Altschul S.F.,Gish W.,Miller W.,Myers E.W.,and Lipman D.J.,1990,Basic local alignment search tool,J.Mol.Biol.,215(3):403-410
Atkin S.L.,Barrier S.,Cui Z.,Fletcher P.D.,Mackenzie G.,Panel V.,Sol V.,and Zhang X.,2011,UV and visible light screening by individual sporopollenin exines derived from Lycopodium clavatum (club moss) and Ambrosia trifida (giant ragweed),J.Photochem.Photobiol.B,102(3):209-217
Castillon A.,Shen H.,and Huq E.,2007,Phytochrome interacting factors:central players in phytochrome-mediated light signaling networks,Trends Plant Sci.,12(11):514-521
Conesa A.,Gtz S.,García-Gómez J.M.,Terol J.,Talón M.,and Robles M.,2005,Blast2GO:a universal tool for annotation,visualization and analysis in functional genomics research,Bioinformatics,21(18):3674-3676
Damar U.,Gersner R.,Johnstone J.T.,Schachter S.,and Rotenberg A.,2016,Huperzine A as a neuroprotective and antiepileptic drug:a review of preclinical research,Expert Rev.Neurother.,16(6):671-680
Ferreira A.,Rodrigues M.,Fortuna A.,Falco A.,and Alves G.,2016,Huperzine A from Huperzia serrata:a review of its sources,chemistry,pharmacology and toxicology,Phytochemistry Reviews,15:51-85
Goralogia G.S.,Liu L.K.,Zhao L.,Panipinto P.M.,Groover E.D.,Bains Y.S.,and Imaizumi T.,2017,Cycling DOF factor 1represses transcription through the TOPLESS co-repressor to control photoperiodic flowering in Arabidopsis,Plant J.,92(2):244-262
Higuchi Y.,Sumitomo K.,Oda A.,Shimizu H.,and Hisamatsu T.,2012,Day light quality affects the night-break response in the short-day plant chrysanthemum,suggesting differential phytochrome-mediated regulation of flowering,J.Plant Physiol.,169(18):1789-1796
Hiltbrunner A.,Viczián A.,Bury E.,Tscheuschler A.,Kircher S.,Tóth R.,Honsberger A.,Nagy F.,Fankhauser C.,and Sch-fer E.,2005,Nuclear accumulation of the phytochrome Aphotoreceptor requires FHY1,Curr.Biol.,15(23):2125-2130
Jiang B.C.,Shi Y.T.,Zhang X.Y.,Xin X.Y.,Qi L.J.,Guo H.W.,Li J.G.,and Yang S.H.,2017,PIF3 is a negative regulator of the CBF pathway and freezing tolerance in Arabidopsis,Proc.Natl.Acad.Sci.USA,114(32):6695-6702
Kamachi H.,Iwasawa O.,Hickok L.G.,Nakayama M.,Noguchi M.,and Inoue H.,2007,The effects of light on sex determination in gametophytes of the fern Ceratopteris richardii,J.Plant Res.,120(5):629-634
Kobayashi J.,Hirasawa Y.,Yoshida N.,and Morita H.,2001,Lyconadin A,a novel alkaloid from Lycopodium complanatum,J.Org.Chem.,66(17):5901-5904
Krall L.,and Reed J.W.,2000,The histidine kinase-related domain participates in phytochrome B function but is dispensable,Proc.Natl.Acad.Sci.USA,97(14):8169-8174
Langmead B.,and Salzberg S.L.,2012,Fast gapped-read alignment with Bowtie 2,Nat.Methods,9(4):357-359
Li B.,and Dewey C.N.,2011,RSEM:accurate transcript quantification from RNA-Seq data with or without a reference genome,BMC Bioinformatics,12:323
Liu J.S.,Zhu Y.L.,Yu C.M.,Zhou Y.Z.,Han Y.Y.,Wu F.W.,and Qi B.F.,1986,The structures of huperzine A and B,two new alkaloids exhibiting marked anticholinesterase activity,Can.J.Chem.,64(4):837-839
Liu T.,Carlsson J.,Takeuchi T.,Newton L.,and FarréE.M.,2013,Direct regulation of abiotic responses by the Arabidopsis circadian clock component PRR7,Plant J.,76(1):101-114
Luo H.M.,Li Y.,Sun C.,Wu Q.,Song J.Y.,Sun Y.Z.,Steinmetz A.,and Chen S.L.,2010,Comparison of 454-ESTs from Huperzia serrata and Phlegmariurus carinatus reveals putative genes involved in lycopodium alkaloid biosynthesis and developmental regulation,BMC Plant Biol.,10:209
Maere S.,Heymans K.,and Kuiper M.,2005,Bi NGO:a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks,Bioinformatics,21(16):3448-3449
M觟glich A.,Yang X.,Ayers R.A.,and Moffat K.,2010,Structure and function of plant photoreceptors,Annu.Rev.Plant Biol.,61:21-47
Nawkar G.M.,Kang C.H.,Maibam P.,Park J.H.,Jung Y.J.,Chae H.B.,Chi Y.H.,Jung I.J.,Kim W.Y.,Yun D.J.,and Lee S.Y.,2017,HY5,a positive regulator of light signaling,negatively controls the unfolded protein response in Arabidopsis,Proc.Natl.Acad.Sci.USA,114(8):2084-2089
Ospina K.R.,Briones O.,and Pérez-García B.,2015,Spore germination of three tree fern species in response to light,water potential,and canopy openness,Am.Fern J.,105(2):59-72
Pertea G.,Huang X.,Liang F.,Antonescu V.,Sultana R.,Karamycheva S.,Lee Y.,White J.,Cheung F.,Parvizi B.,Tsai J.,and Quackenbush J.,2003,TIGR gene indices clustering tools (TGICL):a software system for fast clustering of large EST datasets,Bioinformatics,19(5):651-652
Possart A.,and Hiltbrunner A.,2013,An evolutionarily conserved signaling mechanism mediates far-red light responses in land plants,Plant Cell,25(1):102-114
Possart A.,Fleck C.,and Hiltbrunner A.,2014,Shedding (far-red)light on phytochrome mechanisms and responses in land plants,Plant Sci.,217-218:36-46
Quevillon E.,Silventoinen V.,Pillai S.,Harte N.,Mulder N.,Apweiler R.,and Lopez R.,2005,InterProScan:protein domains identifier,Nucleic Acids Res.,33:116-120
Reutter U.,1987,Growth patterns of gemmlings of Lycopodium lucidulum,Am.Fern J.,77(2):50-57
Rosengren F.,and Cronberg N.,2015,Selective spore germination on shoots of Homalothecium lutescens,a moss with dwarf males,Biol.Lett.,11(7):1-4
SaloméP.A.,Weigel D.,and McClung C.R.,2010,The role of the Arabidopsis morning loop components CCA1,LHY,PRR7,and PRR9 in temperature compensation,Plant Cell,22(11):3650-3661
Shannon P.,Markiel A.,Ozier O.,Baliga N.S.,Wang J.T.,Ramage D.,Amin N.,Schwikowski B.,and Ideker T.,2003,Cytoscape:a software environment for integrated models of biomolecular interaction networks,Genome Res.,13 (11):2498-2504
Shinomura T.,Uchida K.,and Furuya M.,2000,Elementary processes of photoperception by phytochrome A for high-irradiance response of hypocotyl elongation in Arabidopsis,Plant Physiol.,122(1):147-156
Sineshchekov V.,Sudnitsin A.,dám.,Schfer E.,and Viczián A.,2014,phyA-GFP is spectroscopically and photochemically similar to phyA and comprises both its native types,phy A'and phyA'',Photochem.Photobiol.Sci.,13(12):1671-1679
Song H.R.,and CarréI.A.,2005,DET1 regulates the proteasomal degradation of LHY,a component of the Arabidopsis circadian clock,Plant Mol.Biol.,57(5):761-771
Tarazona S.,García-Alcalde F.,Dopazo J.,Ferrer A.,and Conesa A.,2011,Differential expression in RNA-seq:a matter of depth,Genome Res.,21(12):2213-2223
Tsuboi H.,Nakamura S.,Schfer E.,and Wada M.,2012,Red light-induced phytochrome relocation into the nucleus in Adiantum capillus-veneris,Mol.Plant,5(3):611-618
Xu P.B.,Lian H.L.,Xu F.,Zhang T.,Wang S.,Wang W.X.,Du S.S.,Huang J.R.,and Yang H.Q.,2018,Phytochrome Band AGB1 coordinately regulate photomorphogenesis by antagonistically modulating PIF3 stability in Arabidopsis,Mol.Plant,12(2):229-247
Yang M.Q.,You W.J.,Wu S.W.,Fan Z.,Xu B.F.,Zhu M.L.,Li X.,and Xiao Y.L.,2017,Global transcriptome analysis of Huperzia serrata and identification of critical genes involved in the biosynthesis of huperzine A,BMC Genomics,18(1):245
Zhou Q.,Hare P.D.,Yang S.W.,Zeidler M.,Huang L.F.,and Chua N.H.,2005,FHL is required for full phytochrome Asignaling and shares overlapping functions with FHY1,Plant J.,43(3):356-370
基本信息:
DOI：10.13417/j.gab.039.005736
中图分类号:S567.239
引用信息:
[1]张林甦,许义红,陆廷祥,等.基于蛇足石杉转录组测序筛选及分析光周期相关基因[J].基因组学与应用生物学,2020,39(12):5736-5743.DOI:10.13417/j.gab.039.005736.
基金信息:
北京基因组研究所提供技术支持
2020-12-25
2020-12-25