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PHYLOGENETIC ANALYSIS AMONG FOUR SECTIONS OF GENUS DENDROBIUM SW. (ORCHIDACEAE) BASED ON LOW COPY NUCLEAR GENE (XDH) SEQUENCES IN PENINSULAR MALAYSIA | ||
| The Iranian Journal of Botany | ||
| مقاله 16، دوره 21، شماره 2، اسفند 2015، صفحه 169-178 اصل مقاله (365.62 K) | ||
| نوع مقاله: Research Paper | ||
| شناسه دیجیتال (DOI): 10.22092/ijb.2015.103644 | ||
| نویسندگان | ||
| Maryam Moudi* 1؛ Rusea Go2 | ||
| 1Faculty of Science, University of Birjand, Birjand, South Khorasan, Iran. | ||
| 2Department of Biology, Faculty of Science, University Putra Malaysia & Institute of Tropical Forestry & Forest Products, University Putra Malaysia | ||
| چکیده | ||
| The present study focused on the molecular phylogeny of the four sections (Aporum, Crumenata, Strongyle, and Bolbidium) of genus Dendrobium SW. (Orchidaceae) based upon low copy nuclear gene, Xanthine Dehydrogenase (Xdh) sequences using maximum parsimony (MP), maximum likelihood (ML) and Bayesian (BI) methods. Single and low copy nuclear genes have been increasingly used in phylogenetic reconstruction because they contain large amounts of genetic information and are biparentally inherited. Classifications based on morphological characters have not been able to clearly divide these four sections and neither do they support their monophyletic origins. Therefore, detailed analysis using molecular data is required to ascertain their status. This study includes 20 species of genus Dendrobium and 2 species from genus Bulbophyllum (section Sestochilus) as outgroup taxa. According to the results, the aligned sequences consisted of 733 nucleotide characters of which 131characters were parsimony informative. The analysis revealed that the nuclear genes can be reliable marker for the phylogenetic study of genus Dendrobium. The results suggested that the four sections are probably best considered as one section instead of four and based on the International code of Botanical Nomenclature (ICBN) rules can be named as section Aporum for this new classification. | ||
| کلیدواژهها | ||
| Dendrobium؛ Orchidaceae؛ low copy nuclear gene؛ Xdh؛ monophyly؛ phylogeney | ||
| عنوان مقاله [English] | ||
| فیلوژنی چهار بخشه از جنس .Orchidaceae) Dendrobium SW) بر اساس ترکیب داده های توالی ژن هسته ایXdh در شبه جزیره مالزی | ||
| نویسندگان [English] | ||
| مریم مودی1؛ روسه آ گو2 | ||
| 1دانشکده علوم دانشگاه بیرجند، خراسان جنوبی | ||
| 2دپارتمان بیولوژی، دانشکده علوم و دانشکده جنگلداری گرمسیری و محصولات جنگلی، دانشگاه پوتورا ، مالزی | ||
| چکیده [English] | ||
| در مطالعه حاضر با استفاده ازتوالی ژن هسته ای Xdh بازسازی فیلوژنی چهار بخشه از جنس Dendrobium متعلق به تیره گیاهی Orchidaceae با روشهای بیشینه صرفه جویی، درست نمایی حداکثر و بیسین صورت گرفته است. ژن های هسته ای با نسخه کم برای مطالعات فیلوژنتیکی مورد استفاده قرار می گیرند. این ژن ها دارای مقادیر زیادی از اطلاعات ژنتیکی و توارثی از هر دو والد می باشند. مطالعات مورفولوژیکی در ارتباط با مونوفیلی چهار بخشه (Aporum, Crumenata, Strongyle and Bolbidium) قابل استناد نمی باشد. لذا برای دستیابی به اطلاعات دقیقتر نیاز به مطالعات مولکولی می باشد. در مطالعه حاضر 20 گونه گیاهی متعلق به جنس Dendrobium به همراه دو گونه گیاهی از جنس ( Bulbophyllum (section Sestochilus به عنوان برون گروه مورد بررسی قرار گرفته است. بر پایه نتایج ، توالی نوکلئوتیدی همردیف سازی شده دارای 733 جایگاه نوکلئوتیدی می باشد که از این تعداد 133جفت باز به لحاظ پارسیمونی اطلاعاتی است. آنالیز داده ها نشان می دهد که ژن های هسته ای می توانند به عنوان یک نشانگر معتبر مولکولی برای مطالعات فیلوژنتیکی خصوصا در ارتباط با این جنس گیاهی مورد استفاده قرار گیرند. با توجه به نتایج به دست آمده ، پیشنهاد می شود که بهتر است چهار بخشه به صورت یک بخشه در نظر گرفته شده و بر اساس قوانین بین المللی نامگذاری گیاهان به نام بخشه Aporum نامیده شود. | ||
| کلیدواژهها [English] | ||
| Dendrobium, Orchidaceae, low copy nuclear gene, Xdh, monophyly, phylogeney | ||
| مراجع | ||
|
Asahina, H. Shinozaki, J. Masuda, K. Morimitsu, Y. & Satake, M. 2010: Identification of medicinal Dendrobium species by phylogenetic analyses using matK and rbcL sequences.- Journal of Natural Medicines 64: 133-138.
Chase, M. W. Salamin, N. Wilkinson, M. Dunwell, J. M. Kesanakurthi, R. P. Haidar, N. et al. 2005: Land plants and DNA barcods: short-term and long-term goals.- Philosophical Transactions of the Royal Society B: Biological Sciences 360: 1889-1895.
Chase, M. W. Cameron, K. M. Freudenstein, J. V. Pridgeon, A. M. Gerardo, S. Van Den Berg, C & Schuiteman, A. 2015: An updated classification of Orchidaceae. – Botanical Journal of Linnean Society 177: 151-174.
Clements, M. A. 2003: Molecular phylogenetic systematics in the Dendrobiinae (Orchidaceae), with emphasis on Dendrobium section Pedilonum.- Telopea 10(1): 247-272.
Dressler, R. L. & Dodson, C. H. 1960: Classification and phylogeny in the Orchidaceae. - Annals of the Missouri Botanical Garden 47: 25-68.
Gorniak, M. Paun, O. & Chase, M. W. 2010: Phylogenetic relationship within Orchidaceae on low copy nuclear coding gene, Xdh: Congruence with organellar and nuclear ribosomal DNA results. - Molecular phylogenetic and evolution56: 784-795.
Hall, A. T. 1999: Bio Edit: a user friendly biological sequence alignment editor and analysis performer windows 95/98/NT.- Nucleic Acid Symposium series, Axford Journals41: 95-98.
Kuehnle, A. R. 2007: Chapter 20: Orchids, Dendrobium. In: N.O Anderson (ed.), Flower Breeding and Genetics.- Springer, pp. 539-560.
Lavarack, P. S. Harris, W. & Stocker, G. 2000: Dendrobium and its relatives. - Oregon, Portland,Timber Press.
Li, X. Ding, X. Chu, B. Zhou, Q. Ding, G. & Gu, S. 2008 : Genetic diversity analysis and conservation of the endangered Chinese endemic herb Dendrobium officinale Kimura et Migo (Orchidaceae) based on AFLP. – Genetica 133: 159-166.
Mendel, R. R. & Hansch, R. 2002: Molybdoenzymes and molybdenum cofactor in plants. - Journal of Experimental Botany53: 1689-1698.
Morton, C. M. 2011: Newly Sequenced Nuclear Gene (Xdh) for Inferring Angiosperm Phylogeny. - Annals of the Missouri Botanical Garden 98(1): 63-89.Morton, C.A. & Mazie, A. 2007: Angiosperm phylogeny based on nuclear sequence information (abstract). - Botany Plant Biology Joint Congress, Available from: http://2007.botanyconference.org/engine/search/ index.php?func=detail and aid =1801.
Moudi, M. & Go, R. 2015: Monophyly of four sections of genus Dendrobium (ORCHIDACEAE): Evidence from nuclear ribosomal DNA Internal Transcribed Spacer (ITS) sequences. – International Journal of Bioassays 4(1): 3622-3626
Moudi, M. Yong, S. Y. C. Nazre, M. Abdullah, J. O. & Go, R. 2013: Phylogenetic analysis among four sections of genus Dendrobium SW. (Orchidaceae) in Peninsular Malaysia using rbcL sequences.- International Journal of Bioassays 2(6): 932-937.
Olmstead, R. G. & Palmer, J. D. 1994: Chloroplast DNA systematics: a review of methods and data analysis. - American Journal of Botany 81: 205–1224.
Paun, O. Forest, F. Fay, M. F. & Chase, M. W. 2009: Hybrid speciation in angiosperms: parental divergence drives ploidy. - New Phytologist 182(2): 507-518.
Posada, D. & Crandall, K. A. 1998: Modeltest: testing the model of DNA substitution. – Bioinformatics14(9): 817.
Pridgeon, A. M. Cribb, P. J. Chase, M. W. & Rasmussen, F. N. 2003: Genera Orchidacearum 3. Orchidaceae (Part Two), Vol: 3 Vanilloideae). - Oxford, UK, Oxford University Press.
Rodríguez-Trelles, F. Tarrío, R. & Ayala, F. J. 2001: Xanthine dehydrogenase (XDH): episodic evolution of a ‘‘neutral” protein. - Molecular Evvolution 53: 485–495.
Ronquist, F. & Huelsenbeck, J. P. 2003: MrBayes 3: Bayesian phylogenetic inference under mixed models. – Bioinformatics 19 (12): 1572-1574.Sang, T. 2002: Utility of low copy nuclear gene sequences in plant phylogenetics. - Critical reviews in Biochemistry and molecular biology 37: 121-147.Schuietman, A. 2011: Dendrobium (Orchidaceae): to split or not split?. - Gardens Bulletin Singapore 1& 2: 245-257. Schuiteman, A. & Adams, P.B. 2011: New combinations in Dendrobium (Orchidaceae). - Muelleria 29(1): 67. Seidenfaden, G. & Wood, J.J. 1992: The Orchids of Peninsular Malaysia and Singapore. - Fredensborg, Olsen and Olsen. Seidenfaden, G. 1985: Orchid genera in Thailand XII. Dendrobium SW. - Opera Botanica 83: 1–296. Small, R. L. Cronn, R. C. & Wendel, J. F. 2004: L. A. S. JOHNSON REVIEW No. 2. Use of nuclear genes for phylogeny reconstruction in plants. - Australian systematic Botany 17: 145- 170.
Storfer, A. 1996: Quantitative genetics: a promising approach for the assessment of genetic variation in endangered species. -Trends in Ecology and Evolution 11: 343-348.
Swofford, D. L. 2002: PAUP*. Phylogenetic analysis using parsimony (* and other methods) Version 4b10. - Sinauer, Sunderland, Massachusetts, USA.
Tamura, K. Peterson, D. & Peterson, N. 2011: MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. - Molecular Biology and Evolution, Advance access: 10.1093/molbev/ msr121.
Thompson, J. D. Gibson, T. J. Plewniak, F. Jeanmougin, F. & Higgins, D. G. 1997: The CLUSTAL X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. - Nucleic Acids Research 25(24): 4876-4882.
Wang, H. Z. Fenga, S. G. Lua, J. J. Shia, N. N. & Liub, J. J. 2009: Phylogenetic study and molecular identification of 31 Dendrobium species using inter-simple sequence repeat (ISSR) markers. - Scientia Horticulture122: 440-447.
Wang, H. Z. Wang, Y. D. Zhou, X. Y. Ying, Q. C. & Zheng, K. L. 2004: Analysis of genetic diversity of 14 species of Cymbidium based on RAPDs and AFLPs. - Acta Biologiae Exprimetalis Sinica 37 (6): 482–486.
Wolf, K. H. Li, W. H. & Sharp, P. M. 1987: Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs. -Proceeding of the National Academy of Sciences USA 84: 9054-9058.
Xiang, X. G. Schiteman, A. Li, D. Z. Huang, W. C. Chung, S. W. Li, J. W. Zhou, H. L. Jin, W. T. Lai, Y. J. Li, Z. Y. & Jin, X. H. 2013: Molecular systemaic of Dendrobium (Orchidaceae, Dendrobieae) from mainland Asia based on plastid and nuclear sequences. - Molecular Phylogenetics and Evolution 69: 950-960.
Yin, B. Ying-hua, B. Wen-quan, W. Li-li, J. & Yu-ning, Y. 2007: Analysis of the Phylogenetic Relationship of Dendrobium in Chinaby AFLP Technique. - Acta Horticulturae Sinica 34(6): 1569-1574.
Yukawa, T. 2001: Molecular phylogeny of Dendrobium. In: Nagata, H. and Ichihashi, S. (eds). - Proceedings of the seventh Asia Pacific orchid conference (APOC7).
Yukawa, T. Kita, K. & Handa, T. 2000: DNA phylogeny and morphological diversification of Australian Dendrobium (Orchidaceae). - In: Wilson, K.L. and Mossison, D.A. (eds) Monocots: Systematics and Evolution, Melbourne: CSIRO Publishing, pp. 465–471.
Yukawa, T. Ohba, H. Cameron, K. M. & Chase, M. W. 1996: Chloroplast DNA phylogeny of subtribe Dendrobiinae (Orchidaceae): insights from a combined analysis based on rbcL sequences and restriction site variation. - Journal Plant Research 109 (2): 169–176.
Yukawa, T. Kurita, S. Nishida, M. & Hasebe, M. 1993: Phylogenetic implications of chloroplast DNA restriction site variation in subtribe Dendrobiinae (Orchidacaeae). - Lindleyana8: 211–221. | ||
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