ارزیابی بیوانفورماتیک و خصوصیات زیر واحد بزرگ روبیسکو در برخی از ژنوتیپ‌های کاهو

Barker N, Howis S, Nordenstam B et al. (2009) Nuclear and chloroplast DNA-based phylogenies of Chrysanthemoides Tourn. ex Medik.(Calenduleae; Asteraceae) reveal extensive incongruence and generic paraphyly, but support the recognition of infraspecific taxa in C. monilifera. South African Journal of Botany 75, 560-572. https://doi.org/10.1016/j.sajb.2009.05.006

Barthet MM (2006) Expression and Function of the Chloroplast-encoded Gene matK(ed)^(eds). Virginia Tech.

Barthet MM, Hilu KW (2007) Expression of matK: functional and evolutionary implications. AJB 94, 1402-1412. https://doi.org/10.3732/ajb.94.8.1402

Barthet MM, Hilu KW (2008) Evaluating evolutionary constraint on the rapidly evolving gene matK using protein composition. J Mol Evol 66, 85-97. https://doi.org/10.1007/s00239-007-9060-6

Besendahl A, Qiu Y-L, Lee J et al. (2000) The cyanobacterial origin and vertical transmission of the plastid tRNA Leu group-I intron. Curr Genet 37, 12-23. https://doi.org/10.1007/s002940050002

Brohee S, Van Helden J (2006) Evaluation of clustering algorithms for protein-protein interaction networks. BMC bioinformatics 7, 488. https://doi.org/10.1186/1471-2105-7-488

Camacho C, Coulouris G, Avagyan V et al. (2009) BLAST+: architecture and applications. BMC bioinformatics 10, 421. https://doi.org/10.1186/1471-2105-10-421

Chang C-C, Lin H-C, Lin I-P et al. (2005) The chloroplast genome of Phalaenopsis aphrodite (Orchidaceae): comparative analysis of evolutionary rate with that of grasses and its phylogenetic implications. Mol Biol Evol 23, 279-291. https://doi.org/10.1093/molbev/msj029

Chen S, Yao H, Han J et al. (2010) Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species. PloS one 5, e8613. https://doi.org/10.1371/journal.pone.0008613

Dellaporta SL, Wood J, Hicks JB (1983) A plant DNA minipreparation: version II. Plant Mol Biol Rep 1, 19-21. https://doi.org/10.1007/BF02712670

Dietz K-J, Wesemann C, Wegener M et al. (2019) Toward an integrated understanding of retrograde control of photosynthesis. Antioxid Redox Signal 30, 1186-1205.

Duan R-Y, Xiang G-H, Lin Y-X et al. (2019) The complete chloroplast genome of the invasive plant Senecio vulgaris L.(Asteraceae). Mitochondrial DNA 4, 1794-1795. https://doi.org/10.1080/23802359.2019.1612295

Fazeli-Nasab B, Mehrabi AA, Eizadi-Drabandi A (2010) Genetic diversity of different wheat genotypes using seed storage proteins and SSRs markers. Modern Genetics Journal 5, 83-91.

Fazeli-Nasab B, Naghavi MR, Mehrabi AA (2013) Allelic Variation of Microsatellite Markers from Linkage Group A Genome in Wild Populations of Einkorn and Hexaploid Wheat. Agricultural Biotechnology 4, 53-62. http://doi.org/10.13140/RG.2.1.1434.4164

Federici S, Galimberti A, Bartolucci F et al. (2013) DNA barcoding to analyse taxonomically complex groups in plants: the case of Thymus (Lamiaceae). Bot J Linn Soc 171, 687-699. https://doi.org/10.1111/boj.12034

Gamache J, Sun G (2015) Phylogenetic analysis of the genus Pseudoroegneria and the Triticeae tribe using the rbcL gene. Biochem Syst Ecol 62, 73-81. https://doi.org/10.1016/j.bse.2015.07.038

Ghahramanzadeh R, Esselink G, Kodde L et al. (2013) Efficient distinction of invasive aquatic plant species from non-invasive related species using DNA barcoding. Mol Ecol Resour 13, 21-31. https://doi.org/10.1111/1755-0998.12020

Group CPW, Hollingsworth PM, Forrest LL et al. (2009) A DNA barcode for land plants. PNAS 106, 12794-12797.

Guldhe A, Renuka N, Singh P et al. (2019) Effect of phytohormones from different classes on gene expression of Chlorella sorokiniana under nitrogen limitation for enhanced biomass and lipid production. Algal Research 40, 101518. https://doi.org/10.1016/j.algal.2019.101518

Hapsari L, Trimanto T, Wahyudi D (2019) Species diversity and phylogenetic analysis of Heliconia spp. collections of Purwodadi Botanic Garden (East Java, Indonesia) inferred by rbcL gene sequences. Biodiversitas 20, 1266-1283. https://doi.org/10.13057/biodiv/d200505

Heckenhauer J, Salim KA, Chase MW et al. (2017) Plant DNA barcodes and assessment of phylogenetic community structure of a tropical mixed dipterocarp forest in Brunei Darussalam (Borneo). PloS one 12, e0185861. https://doi.org/10.1371/journal.pone.0185861

Jomeh Ghasem Abadi Z, Fakheri B, Fazeli-nasab B (2019) Study of the Molecular Diversity of Internal Transcribed Spacer Region (ITS1.4) in Some Lettuce Genotypes. CBAB 11, 29-39.

Konczak I, Dalar A, Konczak-Islam KA (2014) Health Attributes, Antioxidant Properties and Phytochemical Composition of Traditional Medicinal Plants from Eastern Anatolia(Chapter 7) from Medicinal Plants(Editor: David Alexandre Micael Pereira). Medicinal Plants, Nova Science Publishers, Inc. 183-227 pp

Kress WJ, Erickson DL, Jones FA et al. (2009) Plant DNA barcodes and a community phylogeny of a tropical forest dynamics plot in Panama. Proc Natl Acad Sci USA 106, 18621-18626. 10.1073/pnas.0909820106

Ledford H (2008) Botanical identities. Nat Clim Change 451. https://doi.org/10.1038/451616b

Levin RA, Wagner WL, Hoch PC et al. (2003) Family-level relationships of Onagraceae based on chloroplast rbcL and ndhF data. Am J Bot 90, 107-115. https://doi.org/10.3732/ajb.90.1.107

LI WH (1997) Molecular evolution. Sinauer, Sunder-land, Massachusetts,  ISBN : 0878934634 , 487 Pages.

Li Y, GAO L-M, Poudel RC et al. (2011) High universality of matK primers for barcoding gymnosperms. J Syst Evol 49, 169-175. https://doi.org/10.1111/j.1759-6831.2011.00128.x

Liu L-X, Li R, Worth JR et al. (2017) The complete chloroplast genome of Chinese bayberry (Morella rubra, Myricaceae): implications for understanding the evolution of Fagales. Front Plant Sci 8, 968. https://doi.org/10.3389/fpls.2017.00968

Mahadani P, Ghosh SK (2013) DNA Barcoding: A tool for species identification from herbal juices. DNA Barcodes 1, 35-38. https://doi.org/10.2478/dna-2013-0002

McCarthy C (1998) Chromas 1.45. Griffith University: Southport, QLD.

Nei M, Kumar S (2000) Molecular evolution and phylogenetics. Oxford university press. 352 Pages

Nei M, Li W-H (1979) Mathematical model for studying genetic variation in terms of restriction endonucleases. PNAS 76, 5269-5273.

Nelson N, Ben-Shem A (2004) The complex architecture of oxygenic photosynthesis. Nat Rev Mol Cell Biol 5, 971. https://doi.org/10.1038/nrm1525

Newmaster S, Fazekas A, Steeves R et al. (2008) Testing candidate plant barcode regions in the Myristicaceae. Mol Ecol Resour 8, 480-490. https://doi.org/10.1111/j.1471-8286.2007.02002.x

Pakpahan S, Artama WT, Suparta I (2016) Genetic characteristics and relationship in different goat populations of Indonesia based on Cytochrome B gene sequences. Asian J Anim Sci 10, 29-38. https://doi.org/10.3923/ajas.2016.29.38

Pariset L, Mariotti M, Gargani M et al. (2011) Genetic diversity of sheep breeds from Albania, Greece, and Italy assessed by mitochondrial DNA and nuclear polymorphisms (SNPs). Sci World J 11, 1641-1659. http://dx.doi.org/10.1100/2011/186342

Pfanzelt S, Albach DC, von Hagen KB (2019) Extremely low levels of chloroplast genome sequence variability in Astelia pumila (Asteliaceae, Asparagales). Peer J 7, e6244. https://doi.org/10.7717/peerj.6244

Raman K (2010) Construction and analysis of protein–protein interaction networks. Autom Exp 2, 2. https://doi.org/10.1186/1759-4499-2-2

Sarhan S, Hamed F, Al-Youssef W (2016) The rbcL Gene Sequence Variations among and within Prunus Species. JAST 18, 1105-1115.

Schwede T, Kopp J, Guex N et al. (2003) SWISS-MODEL: an automated protein homology-modeling server. Nucleic Acids Res 31, 3381-3385. https://doi.org/10.1093/nar/gkg520

Soltis DE, Soltis PS (1998) Choosing an approach and an appropriate gene for phylogenetic analysis. In: Molecular systematics of plants II. (ed)^(eds). Springer. pp. 1-42.

Staff N (2008) MatK Gene Is A "Barcode" DNA For Plants(ed)^(eds). https://www.science20.com/news_releases/matk_gene_is_a_barcode_dna_for_plants 

Steven GN, Subramanyam R (2009) Testing plant barcoding in a sister species complex of pantropical Acacia (Mimosoideae, Fabaceae). Mol Ecol Resour 9 Suppl s1, 172-180. 10.1111/j.1755-0998.2009.02642.x

Szklarczyk D, Franceschini A, Wyder S et al. (2014) STRING v10: protein–protein interaction networks, integrated over the tree of life. Nucleic acids research 43, D447-D452. https://doi.org/10.1093/nar/gku1003

Tamura K, Nei M (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10, 512-526. https://doi.org/10.1093/oxfordjournals.molbev.a040023

Tamura K, Stecher G, Peterson D et al. (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30, 2725-2729. https://doi.org/10.1093/molbev/mst197

Uddin MZ, Rifat AB, Mitu FY et al. (2019) Ethnomedicinal plants for prevention of cardiovascular diseases in Bangladesh. Bangl J Plant Taxon 26, 83-95.

Williams BR, Mitchell TC, Wood JR et al. (2014) Integrating DNA barcode data in a monographic study of Convolvulus. Taxon 63, 1287-1306.

Wolfe KH, Li W-H, Sharp PM (1987) Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs. PNAS 84, 9054-9058. https://doi.org/10.1073/pnas.84.24.9054

Zare M, Fakheri B, Farokhzadeh S (2016) Effect of salt stress on morphological traits of lettuce genotypes (Lactuca sativa L.). IJHST 30, 457-468.

Zawadzki CH, Renesto E, Peres MD et al. (2008) Allozyme variation among three populations of the armored catfish Hypostomus regani (Ihering, 1905)(Siluriformes, Loricariidae) from the Paraná and Paraguay river basins, Brazil. Genet Mol Biol 31, 767-771. http://dx.doi.org/10.1590/S1415-47572008000400025 

Zhai W, Duan X, Zhang R et al. (2019) Chloroplast genomic data provide new and robust insights into the phylogeny and evolution of the Ranunculaceae. Mol Phylogenet Evol 135, 12-21. https://doi.org/10.1016/j.ympev.2019.02.024