Plant Diversity ›› 2020, Vol. 42 ›› Issue (02): 120-125.DOI: 10.1016/j.pld.2019.09.002
• Articles • Previous Articles
Yujin Lia,b, Qingqing Yea, De Hec, Huixian Baia, Jianfan Wena
Received:
2019-05-23
Revised:
2019-08-27
Online:
2020-04-30
Published:
2020-04-25
Supported by:
Yujin Lia,b, Qingqing Yea, De Hec, Huixian Baia, Jianfan Wena
通讯作者:
Jianfan Wen
基金资助:
Yujin Li, Qingqing Ye, De He, Huixian Bai, Jianfan Wen. The ubiquity and coexistence of two FBPases in chloroplasts of photosynthetic eukaryotes and its evolutionary and functional implications[J]. Plant Diversity, 2020, 42(02): 120-125.
Yujin Li, Qingqing Ye, De He, Huixian Bai, Jianfan Wen. The ubiquity and coexistence of two FBPases in chloroplasts of photosynthetic eukaryotes and its evolutionary and functional implications[J]. Plant Diversity, 2020, 42(02): 120-125.
Altschul, S.F., Gish, W., Miller, W., Myers, E.W., Lipman, D.J., 1990. Basic local alignment search tool. J. Mol. Biol. 215, 403-410. https://doi.org/10.1016/s0022-2836(05)80360-2. Armougom, F., Moretti, S., Poirot, O., Audic, S., Dumas, P., Schaeli, B., Keduas, V., Notredame, C., 2006. Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-coffee. Nucleic Acids Res. 34, W604-W608. https://doi.org/10.1093/nar/gkl092. Blanc, G., Duncan, G., Agarkova, I., Borodovsky, M., Gurnon, J., Kuo, A., Lindquist, E., Lucas, S., Pangilinan, J., Polle, J., Salamov, A., Terry, A., Yamada, T., Dunigan, D.D., Grigoriev, I.V., Claverie, J.-M., Van Etten, J.L., 2010. The Chlorella variabilis NC64A genome reveals adaptation to photosymbiosis, coevolution with viruses, and cryptic sex. Plant Cell 22, 2943-2955. https://doi.org/10.1105/tpc.110.076406. Bogen, C., Al-Dilaimi, A., Albersmeier, A., Wichmann, J., Grundmann, M., Rupp, O., Lauersen, K.J., Blifernez-Klassen, O., Kalinowski, J., Goesmann, A., Mussgnug, J.H., Kruse, O., 2013. Reconstruction of the lipid metabolism for the microalga Monoraphidium neglectum from its genome sequence reveals characteristics suitable for biofuel production. BMC Genomics 14. https://doi.org/10.1186/1471-2164-14-926. Brawley, S.H., Blouin, N.A., Ficko-Blean, E., Wheeler, G.L., Lohr, M., Goodson, H.V., Jenkins, J.W., Blaby-Haas, C.E., Helliwell, K.E., Chan, C.X., Marriage, T.N., Bhattacharya, D., Klein, A.S., Badis, Y., Brodie, J., Cao, Y., Collen, J., Dittami, S.M., Gachon, C.M.M., Green, B.R., Karpowicz, S.J., Kim, J.W., Kudahl, U.J., Lin, S., Michel, G., Mittag, M., Olson, B.J.S.C., Pangilinan, J.L., Peng, Y., Qiu, H., Shu, S., Singer, J.T., Smith, A.G., Sprecher, B.N., Wagner, V., Wang, W., Wang, Z.-Y., Yan, J., Yarish, C., Zauner-Riek, S., Zhuang, Y., Zou, Y., Lindquist, E.A., Grimwood, J., Barry, K.W., Rokhsar, D.S., Schmutz, J., Stiller, J.W., Grossman, A.R., Prochnik, S.E., 2017. Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta). Proc. Natl. Acad. Sci. U. S. A 114, E6361-E6370. https://doi.org/10.1073/pnas.1703088114. Brown, G., Singer, A., Lunin, V.V., Proudfoot, M., Skarina, T., Flick, R., Kochinyan, S., Sanishvili, R., Joachimiak, A., Edwards, A.M., 2009. Structural and biochemical characterization of the type II fructose-1, 6-bisphosphatase GlpX from Escherichia coli. J. Biol. Chem. 284, 3784-3792. https://doi.org/10.1074/jbc.M808186200. Buchanan, B.B., 1980. Role of light in the regulation of chloroplast enzymes. Annu.Rev. Plant Physiol. Plant Mol. Biol. 31, 341-374. https://doi.org/10.1146/annurev.pp.31.060180.002013. Chiadmi, M., Navaza, A., Miginiac-Maslow, M., Jacquot, J.P., Cherfils, J., 1999. Redox signalling in the chloroplast: structure of oxidized pea fructose-1,6-bisphosphate phosphatase. EMBO J. 18, 6809-6815. https://doi.org/10.1093/emboj/18.23.6809. Chueca, A., Sahrawy, M., Pagano, E.A., Gorge, J.L., 2002. Chloroplast fructose-1,6-bisphosphatase: structure and function. Photosynth. Res. 74, 235-249.https://doi.org/10.1023/a:1021243110495. Collen, J., Porcel, B., Carre, W., Ball, S.G., Chaparro, C., Tonon, T., Barbeyron, T., Michel, G., Noel, B., Valentin, K., Elias, M., Artiguenave, F., Arun, A., Aury, J.-M., Barbosa-Neto, J.F., Bothwell, J.H., Bouget, F.-Y., Brillet, L., Cabello-Hurtado, F., Capella-Gutierrez, S., Charrier, B., Cladiere, L., Cock, J.M., Coelho, S.M., Colleoni, C., Czjzek, M., Da Silva, C., Delage, L., Denoeud, F., Deschamps, P., Dittami, S.M., Gabaldon, T., Gachon, C.M.M., Groisillier, A., Herve, C., Jabbari, K., Katinka, M., Kloareg, B., Kowalczyk, N., Labadie, K., Leblanc, C., Lopez, P.J., McLachlan, D.H., Meslet-Cladiere, L., Moustafa, A., Nehr, Z., Collen, P.N., Panaud, O., Partensky, F., Poulain, J., Rensing, S.A., Rousvoal, S., Samson, G., Symeonidi, A., Weissenbach, J., Zambounis, A., Wincker, P., Boyen, C., 2013. Genome structure and metabolic features in the red seaweed Chondrus crispus shed light on evolution of the Archaeplastida. Proc. Natl. Acad. Sci. U. S. A 110, 5247-5252. https://doi.org/10.1073/pnas.1221259110. Cseke, C., Buchanan, B.B., 1986. Regulation of the formation and utilization of photosynthate in leaves. Biochim. Biophys. Acta 853, 43-63. https://doi.org/10.1016/0304-4173(86)90004-2. Darriba, D., Taboada, G.L., Doallo, R., Posada, D., 2011. ProtTest 3: fast selection of best-fit models of protein evolution. Bioinformatics 27, 1164-1165. https://doi.org/10.1093/bioinformatics/btr088. Di Tommaso, P., Moretti, S., Xenarios, I., Orobitg, M., Montanyola, A., Chang, J.-M., Taly, J.-F., Notredame, C., 2011. T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension. Nucleic Acids Res. 39, W13-W17. https://doi.org/10.1093/nar/gkr245. Donahue, J.L., Bownas, J.L., Niehaus, W.G., Larson, T.J., 2000. Purification and characterization of glpX-encoded fructose 1, 6-bisphosphatase, a new enzyme of the glycerol 3-phosphate regulon of Escherichia coli. J. Bacteriol. 182, 5624-5627.https://doi.org/10.1128/JB.182.19.5624-5627.2000. Emanuelsson, O., Brunak, S., von Heijne, G., Nielsen, H., 2007. Locating proteins in the cell using TargetP, SignalP and related tools. Nat. Protoc. 2, 953-971. https://doi.org/10.1038/nprot.2007.131. Foflonker, F., Price, D.C., Qiu, H., Palenik, B., Wang, S., Bhattacharya, D., 2015.Genome of the halotolerant green alga Picochlorum sp reveals strategies for thriving under fluctuating environmental conditions. Environ. Microbiol. 17, 412-426. https://doi.org/10.1111/1462-2920.12541. Gao, C., Wang, Y., Shen, Y., Yan, D., He, X., Dai, J., Wu, Q., 2014. Oil accumulation mechanisms of the oleaginous microalga Chlorella protothecoides revealed through its genome, transcriptomes, and proteomes. BMC Genomics 15. https://doi.org/10.1186/1471-2164-15-582. Haghjou, M.M., Shariati, M., Pozveh, M.H., 2006. The effect of low light intensities on oxidative stress induced by short-term chilling in Dunaliella salina teod. Pak.J. Biol. Sci. 9, 2048-2054. Martin, W., Mustafa, A.Z., Henze, K., Schnarrenberger, C., 1996. Higher-plant chloroplast and cytosolic fructose-1,6-bisphosphatase isoenzymes: origins via duplication rather than prokaryote-eukaryote divergence. Plant Mol. Biol. 32, 485-491. https://doi.org/10.1007/bf00019100. Merchant, S.S., Prochnik, S.E., Vallon, O., Harris, E.H., Karpowicz, S.J., Witman, G.B., Terry, A., Salamov, A., Fritz-Laylin, L.K., Maréchal-Drouard, L., 2007. The Chlamydomonas genome reveals the evolution of key animal and plant functions.Science 318, 245-250. Notredame, C., Higgins, D.G., Heringa, J., 2000. T-Coffee: a novel method for fast and accurate multiple sequence alignment. J. Mol. Biol. 302, 205-217. https://doi.org/10.1006/jmbi.2000.4042. Ogawa, T., Kimura, A., Sakuyama, H., Tamoi, M., Ishikawa, T., Shigeoka, S., 2015.Characterization and physiological role of two types of chloroplastic fructose-1,6-bisphosphatases in Euglena gracilis. Arch. Biochem. Biophys. 575, 61-68.https://doi.org/10.1016/j.abb.2015.04.002. Polle, J.E.W., Barry, K., Cushman, J., Schmutz, J., Tran, D., Hathwaik, L.T., Yim, W.C., Jenkins, J., McKie-Krisberg, Z., Prochnik, S., Lindquist, E., Dockter, R.B., Adam, C., Molina, H., Bunkenborg, J., Jin, E., Buchheim, M., Magnuson, J., 2017. Draft nuclear genome sequence of the halophilic and beta-carotene-accumulating green alga Dunaliella salina strain CCAP19/18. Genome Announc. 5 https://doi.org/10.1128/genomeA.01105-17. Rashid, N., Imanaka, H., Kanai, T., Fukui, T., Atomi, H., Imanaka, T., 2002. A novel candidate for the true fructose-1, 6-bisphosphatase in archaea. J. Biol. Chem. 277, 30649-30655. https://doi.org/10.1074/jbc.M202868200. Ronquist, F., Teslenko, M., van der Mark, P., Ayres, D.L., Darling, A., Hohna, S., Larget, B., Liu, L., Suchard, M.A., Huelsenbeck, J.P., 2012. MrBayes 3.2: efficient bayesian phylogenetic inference and model choice across a large model space. Syst. Biol. 61, 539-542. https://doi.org/10.1093/sysbio/sys029. Schoenknecht, G., Chen, W.-H., Ternes, C.M., Barbier, G.G., Shrestha, R.P., Stanke, M., Braeutigam, A., Baker, B.J., Banfield, J.F., Garavito, R.M., Carr, K., Wilkerson, C., Rensing, S.A., Gagneul, D., Dickenson, N.E., Oesterhelt, C., Lercher, M.J., Weber, A.P.M., 2013. Gene transfer from bacteria and archaea facilitated evolution of an extremophilic eukaryote. Science 339, 1207-1210. https://doi.org/10.1126/science.1231707. Serrato, A., Maria Yubero-Serrano, E., Maria Sandalio, L., Munoz-Blanco, J., Chueca, A., Luis Caballero, J., Sahrawy, M., 2009. cpFBPaseII, a novel redoxindependent chloroplastic isoform of fructose-1,6-bisphosphatase. Plant Cell Environ. 32, 811-827. https://doi.org/10.1111/j.1365-3040.2009.01960.x. Stamatakis, A., 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22, 2688-2690. https://doi.org/10.1093/bioinformatics/btl446. Teich, R., Zauner, S., Baurain, D., Brinkmann, H., Petersen, J., 2007. Origin and distribution of Calvin cycle fructose and sedoheptulose bisphosphatases in plantae and complex algae: a single secondary origin of complex red plastids and subsequent propagation via tertiary endosymbioses. Protist 158, 263-276.https://doi.org/10.1016/j.protis.2006.12.004. Verhees, C.H., Kengen, S.W.M., Tuininga, J.E., Schut, G.J., Adams, M.W.W., De Vos, W.M., Van der Oost, J., 2003. The unique features of glycolytic pathways in Archaea. Biochem. J. 375, 231-246. https://doi.org/10.1042/bj20021472. Ye, Q., Tian, H., Chen, B., Shao, J., Qin, Y., Wen, J., 2017. Giardia's primitive GPL biosynthesis pathways with parasitic adaptation ‘patches’: implications for Giardia's evolutionary history and for finding targets against Giardiasis. Sci. Rep. 7 https://doi.org/10.1038/s41598-017-10054-1. Zimmermann, G., Kelly, G.J., Latzko, E., 1978. Purification and properties of spinach leaf cytoplasmic fructose-1,6-bisphosphatase. J. Biol. Chem. 253, 5952-5956. |
[1] | Shuo Feng (封烁), Haixia Ma (马海霞), Yu Yin (殷钰), Wei Wan (万薇), Kangshan Mao (毛康珊), Dafu Ru (汝大福). A complex interplay of genetic introgression and local adaptation during the evolutionary history of three closely related spruce species [J]. Plant Diversity, 2025, 47(04): 620-632. |
[2] | Fangdong Geng (耿方东), Miaoqing Liu (刘苗青), Luzhen Wang (王璐珍), Xuedong Zhang (张雪栋), Jiayu Ma (马佳雨), Hang Ye (叶航), Keith Woeste, Peng Zhao (赵鹏). Genomic introgression underlies environmental adaptation in three species of Chinese wingnuts, Pterocarya [J]. Plant Diversity, 2025, 47(03): 365-381. |
[3] | Javier Hernández-Velasco, José Ciro Hernández-Díaz, Sergio Leonel Simental-Rodríguez, Juan P. Jaramillo-Correa, David S. Gernandt, José Jesús Vargas-Hernández, Ilga Porth, Roos Goessen, M. Socorro González-Elizondo, Matthias Fladung, Cuauhtémoc Sáenz-Romero, José Guadalupe Martínez-Ávalos, Artemio Carrillo-Parra, Eduardo Mendoza-Maya, Arnulfo Blanco-García, Christian Wehenkel. Causes of heterozygosity excess: The case of Mexican populations of Populus tremuloides [J]. Plant Diversity, 2025, 47(03): 415-428. |
[4] | Min-Fei Jin, Xiang-Hai Cai, Gao Chen. Seed dispersal by deception: A game between mimetic seeds and their bird dispersers [J]. Plant Diversity, 2025, 47(02): 169-177. |
[5] | Haoxing Xie, Kaifeng Xing, Jun Zhou, Yao Zhao, Jian Zhang, Jun Rong. Single-nucleotide polymorphisms and copy number variations drive adaptive evolution to freezing stress in a subtropical evergreen broad-leaved tree: Hexaploid wild Camellia oleifera [J]. Plant Diversity, 2025, 47(02): 214-228. |
[6] | Amos Kipkoech, Ke Li, Richard I. Milne, Oyetola Olusegun Oyebanji, Moses C. Wambulwa, Xiao-Gang Fu, Dennis A. Wakhungu, Zeng-Yuan Wu, Jie Liu. An integrative approach clarifies species delimitation and biogeographic history of Debregeasia (Urticaceae) [J]. Plant Diversity, 2025, 47(02): 229-243. |
[7] | Miaomiao Shi, Ping Liang, Zhonglai Luo, Yu Zhang, Shiran Gu, Xiangping Wang, Xin Qian, Shuguang Jian, Kuaifei Xia, Shijin Li, Zhongtao Zhao, Tieyao Tu, Dianxiang Zhang. Genome compaction underlies the molecular adaptation of bay cedar (Suriana maritima) to the extreme habitat on the tropical coral islands [J]. Plant Diversity, 2025, 47(02): 337-340. |
[8] | Tian-Rui Wang, Xin Ning, Si-Si Zheng, Yu Li, Zi-Jia Lu, Hong-Hu Meng, Bin-Jie Ge, Gregor Kozlowski, Meng-Xiao Yan, Yi-Gang Song. Genomic insights into ecological adaptation of oaks revealed by phylogenomic analysis of multiple species [J]. Plant Diversity, 2025, 47(01): 53-67. |
[9] | Hong Qian, Oriol Grau. Geographic patterns and ecological causes of phylogenetic structure in mosses along an elevational gradient in the central Himalaya [J]. Plant Diversity, 2025, 47(01): 98-105. |
[10] | Xin Wang, Qing-Hong Feng, Zhi-Hua Zeng, Zhi-Qiang Zhang, Jie Cai, Gao Chen, De-Zhu Li, Hong Wang, Wei Zhou. Effects of mode of reproduction on genetic polymorphism and divergence in wild yams (Dioscoreaceae: Dioscorea) [J]. Plant Diversity, 2025, 47(01): 136-147. |
[11] | Miao Liu, Tiancai Zhou, Quansheng Fu. Leaf nitrogen and phosphorus are more sensitive to environmental factors in dicots than in monocots, globally [J]. Plant Diversity, 2024, 46(06): 804-811. |
[12] | Jun-Yi Zhang, Yue-Hong Cheng, Min Liao, Yu Feng, Sen-Long Jin, Ting-Mei He, Hai He, Bo Xu. A new infrageneric classification of Gastrochilus (Orchidaceae: Epidendroideae) based on molecular and morphological data [J]. Plant Diversity, 2024, 46(04): 435-447. |
[13] | Hui Feng, Achyut Kumar Banerjee, Wuxia Guo, Yang Yuan, Fuyuan Duan, Wei Lun Ng, Xuming Zhao, Yuting Liu, Chunmei Li, Ying Liu, Linfeng Li, Yelin Huang. Origin and evolution of a new tetraploid mangrove species in an intertidal zone [J]. Plant Diversity, 2024, 46(04): 476-490. |
[14] | Zhen Yang, Lisong Liang, Weibo Xiang, Lujun Wang, Qinghua Ma, Zhaoshan Wang. Conservation genomics provides insights into genetic resilience and adaptation of the endangered Chinese hazelnut, Corylus chinensis [J]. Plant Diversity, 2024, 46(03): 294-308. |
[15] | Yumeng Ren, Lushui Zhang, Xuchen Yang, Hao Lin, Yupeng Sang, Landi Feng, Jianquan Liu, Minghui Kang. Cryptic divergences and repeated hybridizations within the endangered “living fossil” dove tree (Davidia involucrata) revealed by whole genome resequencing [J]. Plant Diversity, 2024, 46(02): 169-180. |
Viewed | ||||||
Full text |
|
|||||
Abstract |
|
|||||