Transcriptome analysis on responses of leaf photosynthesis and nitrogen metabolism of Larix gmelinii to environmental change

doi:10.13287/j.1001-9332.202203.008

Abstract

Abstract: To reveal molecular mechanisms underlying photosynthesis responses of Dahurian larch (Larix gmelinii) to environmental changes, we used the high-throughput sequencing technology to sequence the transcriptome of larch leaves from four latitudinal sites with different environmental conditions, and compared differential expression genes (DEGs). The four sites from high- to low-latitude were Tahe (52°52′ N), Songling (50°72′ N), Heihe (49°22′ N), and Dailing (47°08′ N). A total of 282428811 clean reads were sequenced out, among which the abundace of DEGs were 16915, 18812, 28536, 20635, 29957 and 23617 for the Tahe-Songling, Tahe-Heihe, Tahe-Dailing, Songling-Heihe, Songling-Dailing, and Heihe-Dailing comparisons, respectively. The expression of nine Psb genes family (i.e., PsbB, PsbK, PsbO, PsbP, PsbQ, PsbS, PsbW, Psb27, and Psb28) encoding Photosystem Ⅱ and that of three genes (ATPF1A,atpA, ATPF1G, atpG, and ATPF1D, atpH) encoding F-type ATPase, which were involved in photosynthesis pathway, were significantly up-regulated with increasing environmental differences among the sites. A similar up-regulation pattern occurred for the expression of genes encoding glutamine synthetase (glnA, GLUL), nitrate reductase (NR), and carbonic anhydrase (cynT, can) that were involved in nitrogen metabolism pathway. The numbers of DEGs and up-regulated genes increased with the increases in environmental changes among the sites, resulting in inter-site divergence of photosynthetic capacity of larch trees.

Key words: climate change, photosynthesis, response mechanism, ecotype, gene expression

LIU Mei-shuo, WANG Chuan-kuan, QUAN Xian-kui. Transcriptome analysis on responses of leaf photosynthesis and nitrogen metabolism of Larix gmelinii to environmental change[J]. Chinese Journal of Applied Ecology, 2022, 33(4): 957-962.

References

[1] Cordell S, Goldstein G, Mueller-Dombois D, et al. Physiological and morphological variation in Metrosideros polymorpha, a dominant Hawaiian tree species, along an altitudinal gradient: The role of phenotypic plasticity. Oecologia, 1998, 113: 188-196
[2] Gunderson CA, Norby RJ, Wullschleger SD. Acclimation of photosynthesis and respiration to simulated climatic warming in northern and southern populations of Acer saccharum: Laboratory and field evidence. Tree Physiology, 2000, 20: 87-96
[3] Robson TM, Sánchez-Gómez D, Cano FJ, et al. Variation in functional leaf traits among beech provenances during a Spanish summer reflects the differences in their origin. Tree Genetics & Genomes, 2012, 8: 1111-1121
[4] Zhu HY, Weng YH, Zhang HG, et al. Comparing fast-and slow-growing provenances of Picea koraiensis in biomass, carbon parameters and their relationships with growth. Forest Ecology and Management, 2013, 307: 178-185
[5] Crous KY, Drake JE, Aspinwall MJ, et al. Photosynthetic capacity and leaf nitrogen decline along a controlled climate gradient in provenances of two widely distributed Eucalyptus species. Global Change Biology, 2018, 24: 4626-4644
[6] Nabais C, Hansen JK, David-Schwartz R, et al. The effect of climate on wood density: What provenance trials tell us? Forest Ecology and Management, 2018, 408: 148-156
[7] Tjoelker MG, Oleksyn J, Reich PB, et al. Coupling of respiration, nitrogen, and sugars underlies convergent temperature acclimation in Pinus banksiana across wide-ranging sites and populations. Global Change Biology, 2008, 14: 782-797
[8] Bresson CC, Vitasse Y, Kremer A, et al. To what extent is altitudinal variation of functional traits driven by genetic adaptation in European oak and beech? Tree Physiology, 2011, 31: 1164-1174
[9] 全先奎, 王传宽. 帽儿山17个种源落叶松针叶的水分利用效率比较. 植物生态学报, 2015, 39(4): 352-361
[10] Quan XK, Wang CK. Acclimation and adaptation of leaf photosynthesis, respiration and phenology to climate change: A 30-year Larix gmelinii common-garden expe-riment. Forest Ecology and Management, 2018, 411: 166-175
[11] 万丽娜, 王传宽, 全先奎. 纬度梯度移栽对兴安落叶松针叶暗呼吸温度敏感性的影响. 应用生态学报, 2019, 30(5): 1659-1666
[12] Quan XK, Wang N, Wang CK. Thermal acclimation of leaf dark respiration of Larix gmelinii: A latitudinal transplant experiment. Science of the Total Environment, 2020, 743: 140634
[13] Qi YX, Liu YB, Rong WH. RNA-Seq and its applications: A new technology for transcriptomics. Hereditas (Beijing), 2011, 33: 1191-1202
[14] Sun TT, Zhang JK, Zhang Q, et al. Integrative physiological, transcriptome, and metabolome analysis reveals the effects of nitrogen sufficiency and deficiency conditions in apple leaves and roots. Environmental and Experimental Botany, 2021, 192: 104633
[15] Cheng Y, Zhou Q, Li WM, et al. De novo transcriptome assembly and gene expression profiling of Ipomoea pes-caprae L. under heat and cold stresses. Scientia Horticulturae, 2021, 289: 110379
[16] Han X, He B, Xin Y, et al. Full-length sequencing of Ginkgo biloba L. reveals the synthesis of terpenoids du-ring seed development. Industrial Crops and Products, 2021, 170: 113714
[17] Niu JQ, Ma M, Yin XN, et al. Transcriptional and physiological analyses of reduced density in apple provide insight into the regulation involved in photosynthesis. PLoS One, 2020, 15(12): e0244012
[18] Wang XT, Zhang HK, Li YL, et al. Transcriptome asymmetry in synthetic and natural allotetraploid wheats, revealed by RNA-sequencing. New Phytologist, 2016, 209: 1264-1277
[19] Scarano D, Rao R, Corrado G. In Silico identification and annotation of non-coding RNAs by RNA-seq and De Novo assembly of the transcriptome of tomato fruits, PLoS One, 2017, 12(2): e0171504
[20] Grabherr MG, Haas BJ, Yassour M, et al. Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nature Biotechnology, 2011, 29: 644-652
[21] Altschul SF, Madden TL, Schaffer AA, et al. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Research, 1997, 25: 3389-3402
[22] Kanehisa M, Araki M, Goto S, et al. KEGG for linking genomes to life and the environment. Nucleic Acids Research, 2008, 36: 480-484
[23] Tian XH, Xie JM, Yu JH. Physiological and transcriptomic responses of Lanzhou Lily (Lilium davidii var. unicolor) to cold stress. PLoS One, 2020, 15(1): e0227921
[24] Xu CC, Li ZY, Wang JB. Linking heat and adaptive responses across temporal proteo-transcriptome and physiological traits of Solidago canadensis. Environmental and Experimental Botany, 2020, 175: 104035
[25] Reich PB, Sendall KM, Stefanski A, et al. Effects of climate warming on photosynthesis in boreal tree species depend on soil moisture. Nature, 2018, 562: 263-267
[26] Suga M, Akita F, Hirata K, et al. Native structure of photosystem Ⅱ at 1.95 resolution viewed by femtose-cond X-ray pulses. Nature, 2015, 517: 99-103
[27] Wu M, Li ZY, Wang JB. Transcriptional analyses reveal the molecular mechanism governing shade tolerance in the invasive plant Solidago canadensis. Ecology and Evolution, 2020, 10: 4391-4406
[28] Way DA, Yamori W. Thermal acclimation of photosynthesis: On the importance of adjusting our definitions and accounting for thermal acclimation of respiration. Photosynthesis Research, 2014, 119: 89-100
[29] 王楠. 暖化和火干扰影响兴安落叶松生长的关键生态学机理研究. 博士论文. 哈尔滨: 东北林业大学, 2020
[30] Deng SX, Jiang M, Zhang LL, et al. De novo transcriptome sequencing and gene expression profiling of Magnolia wufengensis in response to cold stress. BMC Plant Biology, 2019, 19: 321
[31] Yamori W, Shikanai T. Physiological functions of cyclic electron transport around photosystem Ⅰ in sustaining photosynthesis and plant growth. Annual Review of Plant Biology, 2016, 67: 81-106
[32] Shikanai T. Cyclic electron transport around photosystem Ⅰ. Genetic approaches. Annual Review of Plant Biology, 2007, 58: 199-217
[33] Jaleel CA, Manivannan P, Wahid A, et al. Drought stress in plants: A review on morphological characteristics and pigments composition. International Journal of Agriculture & Biology, 2009, 11: 100-105
[34] Dusenge ME, Madhavji S, Way DA. Contrasting acclimation responses to elevated CO₂ and warming between an evergreen and a deciduous boreal conifer. Global Change Biology, 2020, 26: 3639-3657
[35] Peterman TK, Goodman HM. The glutamine synthetase gene family of Arabidopsis thaliana light-regulation and differential expression in leaves, roots and seeds. Mole-cular and General Genetics, 1991, 230: 145-154
[36] Xu GH, Fan XR, Miller AJ. Plant nitrogen assimilation and use efficiency. Annual Review of Plant Biology, 2012, 63: 153-182
[37] 蒋春云, 马秀灵, 沈晓艳, 等. 植物碳酸酐酶的研究进展. 植物生理学报, 2013, 49(6): 545-550
[38] Xin M, Wang L, Liu YP, et al. Transcriptome profiling of cucumber genome expression in response to long-term low nitrogen stress. Acta Physiologiae Plantarum, 2017, 39: 130
[39] 黄仁, 张韵, 张启香, 等. 异源授粉山核桃果皮光合能力差异的转录组分析. 林业科学, 2019, 55(1): 128-137
[40] Liu X, Yin CM, Li X, et al. Transcription strategies related to photosynthesis and nitrogen metabolism of wheat in response to nitrogen deficiency. BMC Plant Biology, 2020, 20: 448