Identification and philogenetic analysis for flora of «Bayanaul» and «Burabay» national parks by using ITS
DOI:
https://doi.org/10.26577/eb-2018-1-1312Abstract
When identifying biological materials popular is the use of universal DNA-barcode. At present, the study of the genetic diversity of the flora of Northern Kazakhstan at different taxonomic levels (generic, species and subspecies) was not carried out using DNA markers. The purpose of this work was the identification and phylogenetic analysis for flora of national parks «Bayanaul» and «Burabay» by using ITS. As a source material, plant material was used, which was collected from May to July months 2015-2017 in national parks «Bayanaul» (90 species ) and «Burabay» (69 species). As a result of the research, 64 endemic and rare plant species of two national parks were visually identified. The level of genetic diversity of plants of the family Fabaceae is estimated. In phylogenetic analysis, the Lathyrus pisiformis, Trifolium repens, Medicago falcata, Oxytropis floribunda, Glycyrrhiza uralensis Fisch., the family is divided into 2 clusters of five plant genera. The intraspecific level of the genetic diversity of the Juniperus sabina L. formed two subclusters, depending on the type of population, where the Tajima index was 1.183269. The obtained data on the basis of classical approaches of taxonomy and molecular genetic methods will allow to create in the future an electronic database on endemic, rare and economically valuable plant species.
Key words: Bayanaul SNNP, Burabay SNNP, flora, DNA genotyping, ITS (internal transcribed spacer)
References
Литература
1 Материалы Четвертого Национального доклада Республики Казахстан о биологическом разнообразии. – Астана, 2008. – C. 3-6.
2 Данченко А.М., Кабанова С.А., Особо охраняемые природные территории Республики Казахстан и проблемы сохранения // Хвойные бореальной зоны. – 2007. – №2-3. – С. 179-182.
3 Баянаульский государственный национальный природный парк // http:www.marstour.kz/in-tourism/zapovedniki/bayanaulskij. – 2009.
4 Огарь Н.П., Иващенко А.А. Заповедники и национальные парки Казахстана // http://silkadv.com/ru/node/996. – Алматы, 2005.
5 Gao J., Liao P., Meng W. H. et.al. Application of DNA barcodes for testing hypotheses on the role of trait conservatism and adaptive plasticity in Acer L. section Palmata Pax (Sapindaceae) // Braz. J. Bot. – 2017. – Vol. 40. – P. 993-1005. DOI:10.1007/s40415-017-0404-1.
6 Doh E. J., Kim J.-H., Oh S., Lee G. Identification and monitoring of Korean medicines derived from Cinnamomum spp. by using ITS and DNA marker // Genes Genom. – 2017. – Vol. 39. – P.101-109. DOI 10.1007/s13258-016-0476-5.
7 Tsai J.‑N., Ann P.‑J., Liou R.‑F. et.al. Phellinus noxius: molecular diversity among isolates from Taiwan and its phylogenetic relationship with other species of Phellinus based on sequences of the ITS region // Bot Stud. – 2017. – Vol. 58. – pp. 9. DOI 10.1186/s40529-017-0162-1.
8 Rodrigues V. T., Smidt E. de C., Bolson M., F. de Barros. Phylogeny of Acianthera sect. Pleurobotryae (Orchidaceae: Pleurothallidinae), an endemic group of the Atlantic Forest // Braz. J. Bot. – 2017. – Vol. 40, No 3. – P. 811-817. DOI 10.1007/s40415-017-0384-1.
9 Dong W., Liu H., Xu C., Zuo Y., Chen Z. and Zhou S. A chloroplast genomic strategy for designing taxon specific DNA mini-barcodes: a case study on ginsengs // BMC genetics. – 2014. – Vol. 15. – Р. 138. DOI: 10.1186/s12863-014-0138-z.
10 Hebert P.D., Ratnasingham S., deWaard J.R. Barcoding animal life: cytochrome C oxidase subunit 1 divergences among closely related species // Proc. Biol. Sci. – 2003. – Vol. 1. – P. 96-99. DOI: 10.1098/rsbl.2003.0025.
11 Hebert P.D., Cywinska A., Ball S.L., deWaard J.R. Biological identifications through DNA barcodes // Proc. Biol. Sci. – 2003. – Vol. 270. – P.313-321. DOI: 10.1098/rspb.2002.2218.
12 Матвеева Н.А., Курбатова Л.Е., Шаховский А.М., Кищенко Е.М., Дуплий В.П., Кваско Е.Ю. Использования некоторых ядерных и хлоропластных генов для видового определения растений Антарктики // Матер. междунар. науч. конф. «Современные аспекты генетической инженерии растений». – Киев, 2011. – С.40-43.
13 Alvarez I., Wendel J.F. Ribosomal ITS sequences and plant phylogenetic inference // Mol. Phylogenet. Evol. – 2003. – Vol. 29. – P. 417-434.
14 Kress W.J., Wurdac K.J., Zimmer E.A., Weight L.A., Jonsen D.H. Use of DNA barcodes to identify flowering plants // Proc. Natl. Acad. Sci. USA. – 2005. – Vol. 102. – P. 8369-8374. DOI:10.1073/pnas.0503123102.
15 Cullings К.W., Vogler D.R. A 5.8S nuclear ribosomal RNA gene sequence database: applications to ecology and evolution // Mol. Ecol. – 1998. – Vol. 7. – P. 919-923. DOI: 10.1046/j.1365-294x.1998.00409.x.
16 Павлов Н.П. Флора Казахстана. – Алма-Ата: Наука, 1961. – Т. 1-9. – 639 с.
17 Голоскоков В.П. Определитель растений Казахстана. – 1972. – Т. 1-2. – 571 с.
18 Искаков М.А., Муранец А.П., Баймуканов Ш.К. Русско-казахско-латинский словарь названий растений. – Астана, 2014. – 116 с.
19 Тасова А.С., Баймуканов Ш.К. Русско-казахско-латинский словарь названий растений. – Астана, 2014. – 204 с.
20 Doyle J.J., Doyle J.L. A rapid total DNA preparation procedure for fresh plant tissue // Focus. – 1990. –Vol.12. – P. 13-15.
21 Embong Z., Wan Hitam W.H., Yean C. Y., Rashid N.H., Kamarudin B. et.al. Specific detection of fungal pathogens by 18S rRNA gene PCR in microbial keratitis // BMC Ophthalmology. – 2008. – Vol. 8. – pp. 7. DOI:10.1186/1471-2415-8-7.
22 White T. J. et al. Amplification and direct sequencing of fungal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications. – New York, 1990. – P. 315-322. DOI:10.1016/B978-0-12-372180-8.50042-1.
23 Allex C.F., Shavlik J.W., Blattner F.R. Neural network input representations that produce accurate consensus sequences from DNA fragment assemblies // BioInformatics. – 1999. – Vol. 15, No 9. – P. 723-728.
24 Tamura K., Peterson D., Peterson N., Stecher G., Nei M., and Kumar S. MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods // Mol. Biol. Evol. – 2011. – Vol. 28. – P. 2731-2739. DOI: 10.1093/molbev/msr121.
25 Saitou N., Nei M. The neighbor-joining method: A new method for reconstructing phylogenetic trees // Mol. Biol. Evol. – 1987. – Vol. 4. – P. 406-425. DOI.org/10.1093/oxfordjournals.molbev.a040454.
26 Felsenstein J. Confidence limits on phylogenies: An approach using the bootstrap // Evolution. – 1985. – Vol. 39. – P. 783-791. DOI: 10.1111/j.1558-5646.1985.tb00420.x.
27 Tamura K., Nei M., Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method // Proc. Natl. Acad. Sci. USA. – 2004. – Vol. 101. – P. 11030-11035. DOI:10.1073/pnas.0404206101.
28 Baldwin B.G., Sanderson M.J., Porter M. et.al. The ITS region of nuclear Ribosomal DNA: a valuable source of evidence on angiosperm phylogeny // Annals of the Missouri Botanical Garden. – 1995. – Vol. 82. – P. 247-277.
29 Qiang Z., Yu-long D, Chen XU. et.al. A preliminary analysis of phylogenetic relationships of Arundinaria and related genera based on nucleotide sequences of nrDNA (ITS region) and cpDNA (trnL-F intergenic spacer) // Journal of Forestry Research. – 2005. – Vol. 16, No 1. – P. 5-8.
30 Jun W., Nian-He X. Ardisia crenata Complex (Primulaceae) Studies Using Morphological and Molecular Data // Botany, 2012. ISBN: 978-953-51-0355-4.
References
1 Materialy Chetvertogo Nacional'nogo doklada Respubliki Kazahstan o biologicheskom raznoobrazii (2008) [Proceedings of the Fourth National Report of the Republic of Kazakhstan on Biological Diversity]. Astana, pp. 3-6.
2 Danchenko A.M., Kabanova S.A. (2007) Osobo ohranyaemye prirodnye territorii Respubliki Kazahstan i problemy sohraneniya [Specially protected natural territories of the Republic of Kazakhstan and problems of conservation]. Hvojnye boreal'noj zony, no. 2-3, pp. 179-182.
3 Bayanaul'skij gosudarstvennyj nacional'nyj prirodnyj park (2009) [Bayanaul State National Natural Park] // http:www.marstour.kz/in-tourism/zapovedniki/bayanaulskij.
4 Ogar N.P., Ivaschenko A.A. (2005) Zapovedniki i natsionalnyie parki Kazahstana [Reserves and national parks of Kazakhstan] // http://silkadv.com/ru/node/996, Almaty.
5 Gao J., Liao P., Meng W. H. et.al. (2017) Application of DNA barcodes for testing hypotheses on the role of trait conservatism and adaptive plasticity in Acer L. section Palmata Pax (Sapindaceae). Braz. J. Bot., vol. 40, pp. 993-1005. DOI:10.1007/s40415-017-0404-1.
6 Doh E. J., Kim J.-H., Oh S., Lee G. (2017) Identification and monitoring of Korean medicines derived from Cinnamomum spp. by using ITS and DNA marker. Genes Genom., vol. 39, pp. 101-109. DOI 10.1007/s13258-016-0476-5.
7 Tsai J.N., Ann P.J., Liou R.F. et.al. (2017) Phellinus noxius: molecular diversity among isolates from Taiwan and its phylogenetic relationship with other species of Phellinus based on sequences of the ITS region. Bot Stud., vol. 58, 9 p. DOI 10.1186/s40529-017-0162-1.
8 Rodrigues V. T., Smidt E. de C., Bolson M., F. de Barros. (2017) Phylogeny of Acianthera sect. Pleurobotryae (Orchidaceae: Pleurothallidinae), an endemic group of the Atlantic Forest. Braz. J. Bot., vol. 40, no 3, pp. 811-817. DOI 10.1007/s40415-017-0384-1.
9 Dong W., Liu H., Xu C., Zuo Y., Chen Z. and Zhou S. (2014) A chloroplast genomic strategy for designing taxon specific DNA mini-barcodes: a case study on ginsengs. BMC genetics, vol. 15, 138 p. DOI: 10.1186/s12863-014-0138-z.
10 Hebert P.D., Ratnasingham S., deWaard J.R. (2003) Barcoding animal life: cytochrome C oxidase subunit 1 divergences among closely related species. Proc. Biol. Sci., vol. 1, pp. 96-99. DOI: 10.1098/rsbl.2003.0025.
11 Hebert P.D., Cywinska A., Ball S.L., deWaard J.R. (2003) Biological identifications through DNA barcodes. Proc. Biol. Sci., vol. 270, pp. 313-321. DOI: 10.1098/rspb.2002.2218.
12 Matveeva N.A., Kurbatova L.E., SHahovskij A.M., Kishchenko E.M., Duplij V.P., Kvasko E.YU. (2011) Ispol'zovaniya nekotoryh yadernyh i hloroplastnyh genov dlya vidovogo opredeleniya rastenij Antarktiki [Use some of the nuclear and chloroplast genes to determine the species of Antarctic plants]. Mater. mezhdunar. nauch. konf. "Sovremennye aspekty geneticheskoj inzhenerii rastenij" Kiev, pp. 40-43.
13 Alvarez I., Wendel J.F. (2003) Ribosomal ITS sequences and plant phylogenetic inference. Mol. Phylogenet. Evol., vol. 29, pp. 417-434.
14 Kress W.J., Wurdac K.J., Zimmer E.A., Weight L.A., Jonsen D.H. (2005) Use of DNA barcodes to identify flowering plants. Proc. Natl. Acad. Sci, USA, vol. 102, pp. 8369-8374. DOI:10.1073/pnas.0503123102.
15 Cullings К.W., Vogler D.R. (1998) A 5.8S nuclear ribosomal RNA gene sequence database: applications to ecology and evolution. Mol. Ecol., vol. 7, pp. 919-923. DOI: 10.1046/j.1365-294x.1998.00409.x.
16 Pavlov N.P. (1961) Flora Kazahstana [Flora of Kazakhstan]. Alma-Ata: Nauka, vol. 1-9, 639 p.
17 Goloskokov V.P. (1972) Opredelitel' rastenij Kazahstana [The determinant of plants in Kazakhstan]. vol. 1-2, 571 p.
18 Iskakov M.A., Muranec A.P., Bajmukanov SH.K. (2014) Russko-kazahsko-latinskij slovar' nazvanij rastenij [Russian-Kazakh-Latin Dictionary Plant Names]. Astana, 116 p.
19 Tasova A.S., Bajmukanov Sh.K. (2014) Russko-kazahsko-latinskij slovar' nazvanij rastenij [Russian-Kazakh-Latin Dictionary Plant Names]. Astana, 204 p.
20 Doyle J.J., Doyle J.L. (1990) A rapid total DNA preparation procedure for fresh plant tissue. Focus, vol.12, pp. 13-15.
21 Embong Z., Wan Hitam W.H., Yean C. Y., Rashid N.H., Kamarudin B. et.al. (2008) Specific detection of fungal pathogens by 18S rRNA gene PCR in microbial keratitis. BMC Ophthalmology, vol. 8, 7 p. DOI:10.1186/1471-2415-8-7.
22 White T. J. et al. (1990) Amplification and direct sequencing of fungal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications. New York, pp. 315-322. DOI:10.1016/B978-0-12-372180-8.50042-1.
23 Allex C.F., Shavlik J.W., Blattner, F.R. (1999). Neural network input representations that produce accurate consensus sequences from DNA fragment assemblies. BioInformatics, vol. 15, no 9, pp. 723-728.
24 Tamura K., Peterson D., Peterson N., Stecher G., Nei M., and Kumar S. (2011) MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. Mol. Biol. Evol., vol. 28, pp. 2731-2739. DOI:10.1093/molbev/msr121.
25 Saitou N., Nei M. (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol., vol. 4, pp. 406-425. DOI.org/10.1093/oxfordjournals.molbev.a040454.
26 Felsenstein J. (1985) Confidence limits on phylogenies: An approach using the bootstrap. Evolution, vol. 39, pp. 783-791. DOI: 10.1111/j.1558-5646.1985.tb00420.x.
27 Tamura K., Nei M., Kumar S. (2004) Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc. Natl. Acad. Sci. USA, vol. 101, pp. 11030-11035. DOI:10.1073/pnas.0404206101.
28 Baldwin B.G., Sanderson M.J., Porter M. et.al. (1995) The ITS region of nuclear Ribosomal DNA: a valuable source of evidence on angiosperm phylogeny. Annals of the Missouri Botanical Garden, vol. 82, pp. 247-277.
29 Qiang Z., Yu-long D, Chen XU. et.al. (2005) A preliminary analysis of phylogenetic relationships of Arundinaria and related genera based on nucleotide sequences of nrDNA (ITS region) and cpDNA (trnL-F intergenic spacer). Journal of Forestry Research, vol. 16, no 1, pp. 5-8.
30 Jun W., Nian-He X. (2012) Ardisia crenata Complex (Primulaceae) Studies Using Morphological and Molecular Data. Botany, ISBN: 978-953-51-0355-4.
1 Материалы Четвертого Национального доклада Республики Казахстан о биологическом разнообразии. – Астана, 2008. – C. 3-6.
2 Данченко А.М., Кабанова С.А., Особо охраняемые природные территории Республики Казахстан и проблемы сохранения // Хвойные бореальной зоны. – 2007. – №2-3. – С. 179-182.
3 Баянаульский государственный национальный природный парк // http:www.marstour.kz/in-tourism/zapovedniki/bayanaulskij. – 2009.
4 Огарь Н.П., Иващенко А.А. Заповедники и национальные парки Казахстана // http://silkadv.com/ru/node/996. – Алматы, 2005.
5 Gao J., Liao P., Meng W. H. et.al. Application of DNA barcodes for testing hypotheses on the role of trait conservatism and adaptive plasticity in Acer L. section Palmata Pax (Sapindaceae) // Braz. J. Bot. – 2017. – Vol. 40. – P. 993-1005. DOI:10.1007/s40415-017-0404-1.
6 Doh E. J., Kim J.-H., Oh S., Lee G. Identification and monitoring of Korean medicines derived from Cinnamomum spp. by using ITS and DNA marker // Genes Genom. – 2017. – Vol. 39. – P.101-109. DOI 10.1007/s13258-016-0476-5.
7 Tsai J.‑N., Ann P.‑J., Liou R.‑F. et.al. Phellinus noxius: molecular diversity among isolates from Taiwan and its phylogenetic relationship with other species of Phellinus based on sequences of the ITS region // Bot Stud. – 2017. – Vol. 58. – pp. 9. DOI 10.1186/s40529-017-0162-1.
8 Rodrigues V. T., Smidt E. de C., Bolson M., F. de Barros. Phylogeny of Acianthera sect. Pleurobotryae (Orchidaceae: Pleurothallidinae), an endemic group of the Atlantic Forest // Braz. J. Bot. – 2017. – Vol. 40, No 3. – P. 811-817. DOI 10.1007/s40415-017-0384-1.
9 Dong W., Liu H., Xu C., Zuo Y., Chen Z. and Zhou S. A chloroplast genomic strategy for designing taxon specific DNA mini-barcodes: a case study on ginsengs // BMC genetics. – 2014. – Vol. 15. – Р. 138. DOI: 10.1186/s12863-014-0138-z.
10 Hebert P.D., Ratnasingham S., deWaard J.R. Barcoding animal life: cytochrome C oxidase subunit 1 divergences among closely related species // Proc. Biol. Sci. – 2003. – Vol. 1. – P. 96-99. DOI: 10.1098/rsbl.2003.0025.
11 Hebert P.D., Cywinska A., Ball S.L., deWaard J.R. Biological identifications through DNA barcodes // Proc. Biol. Sci. – 2003. – Vol. 270. – P.313-321. DOI: 10.1098/rspb.2002.2218.
12 Матвеева Н.А., Курбатова Л.Е., Шаховский А.М., Кищенко Е.М., Дуплий В.П., Кваско Е.Ю. Использования некоторых ядерных и хлоропластных генов для видового определения растений Антарктики // Матер. междунар. науч. конф. «Современные аспекты генетической инженерии растений». – Киев, 2011. – С.40-43.
13 Alvarez I., Wendel J.F. Ribosomal ITS sequences and plant phylogenetic inference // Mol. Phylogenet. Evol. – 2003. – Vol. 29. – P. 417-434.
14 Kress W.J., Wurdac K.J., Zimmer E.A., Weight L.A., Jonsen D.H. Use of DNA barcodes to identify flowering plants // Proc. Natl. Acad. Sci. USA. – 2005. – Vol. 102. – P. 8369-8374. DOI:10.1073/pnas.0503123102.
15 Cullings К.W., Vogler D.R. A 5.8S nuclear ribosomal RNA gene sequence database: applications to ecology and evolution // Mol. Ecol. – 1998. – Vol. 7. – P. 919-923. DOI: 10.1046/j.1365-294x.1998.00409.x.
16 Павлов Н.П. Флора Казахстана. – Алма-Ата: Наука, 1961. – Т. 1-9. – 639 с.
17 Голоскоков В.П. Определитель растений Казахстана. – 1972. – Т. 1-2. – 571 с.
18 Искаков М.А., Муранец А.П., Баймуканов Ш.К. Русско-казахско-латинский словарь названий растений. – Астана, 2014. – 116 с.
19 Тасова А.С., Баймуканов Ш.К. Русско-казахско-латинский словарь названий растений. – Астана, 2014. – 204 с.
20 Doyle J.J., Doyle J.L. A rapid total DNA preparation procedure for fresh plant tissue // Focus. – 1990. –Vol.12. – P. 13-15.
21 Embong Z., Wan Hitam W.H., Yean C. Y., Rashid N.H., Kamarudin B. et.al. Specific detection of fungal pathogens by 18S rRNA gene PCR in microbial keratitis // BMC Ophthalmology. – 2008. – Vol. 8. – pp. 7. DOI:10.1186/1471-2415-8-7.
22 White T. J. et al. Amplification and direct sequencing of fungal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications. – New York, 1990. – P. 315-322. DOI:10.1016/B978-0-12-372180-8.50042-1.
23 Allex C.F., Shavlik J.W., Blattner F.R. Neural network input representations that produce accurate consensus sequences from DNA fragment assemblies // BioInformatics. – 1999. – Vol. 15, No 9. – P. 723-728.
24 Tamura K., Peterson D., Peterson N., Stecher G., Nei M., and Kumar S. MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods // Mol. Biol. Evol. – 2011. – Vol. 28. – P. 2731-2739. DOI: 10.1093/molbev/msr121.
25 Saitou N., Nei M. The neighbor-joining method: A new method for reconstructing phylogenetic trees // Mol. Biol. Evol. – 1987. – Vol. 4. – P. 406-425. DOI.org/10.1093/oxfordjournals.molbev.a040454.
26 Felsenstein J. Confidence limits on phylogenies: An approach using the bootstrap // Evolution. – 1985. – Vol. 39. – P. 783-791. DOI: 10.1111/j.1558-5646.1985.tb00420.x.
27 Tamura K., Nei M., Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method // Proc. Natl. Acad. Sci. USA. – 2004. – Vol. 101. – P. 11030-11035. DOI:10.1073/pnas.0404206101.
28 Baldwin B.G., Sanderson M.J., Porter M. et.al. The ITS region of nuclear Ribosomal DNA: a valuable source of evidence on angiosperm phylogeny // Annals of the Missouri Botanical Garden. – 1995. – Vol. 82. – P. 247-277.
29 Qiang Z., Yu-long D, Chen XU. et.al. A preliminary analysis of phylogenetic relationships of Arundinaria and related genera based on nucleotide sequences of nrDNA (ITS region) and cpDNA (trnL-F intergenic spacer) // Journal of Forestry Research. – 2005. – Vol. 16, No 1. – P. 5-8.
30 Jun W., Nian-He X. Ardisia crenata Complex (Primulaceae) Studies Using Morphological and Molecular Data // Botany, 2012. ISBN: 978-953-51-0355-4.
References
1 Materialy Chetvertogo Nacional'nogo doklada Respubliki Kazahstan o biologicheskom raznoobrazii (2008) [Proceedings of the Fourth National Report of the Republic of Kazakhstan on Biological Diversity]. Astana, pp. 3-6.
2 Danchenko A.M., Kabanova S.A. (2007) Osobo ohranyaemye prirodnye territorii Respubliki Kazahstan i problemy sohraneniya [Specially protected natural territories of the Republic of Kazakhstan and problems of conservation]. Hvojnye boreal'noj zony, no. 2-3, pp. 179-182.
3 Bayanaul'skij gosudarstvennyj nacional'nyj prirodnyj park (2009) [Bayanaul State National Natural Park] // http:www.marstour.kz/in-tourism/zapovedniki/bayanaulskij.
4 Ogar N.P., Ivaschenko A.A. (2005) Zapovedniki i natsionalnyie parki Kazahstana [Reserves and national parks of Kazakhstan] // http://silkadv.com/ru/node/996, Almaty.
5 Gao J., Liao P., Meng W. H. et.al. (2017) Application of DNA barcodes for testing hypotheses on the role of trait conservatism and adaptive plasticity in Acer L. section Palmata Pax (Sapindaceae). Braz. J. Bot., vol. 40, pp. 993-1005. DOI:10.1007/s40415-017-0404-1.
6 Doh E. J., Kim J.-H., Oh S., Lee G. (2017) Identification and monitoring of Korean medicines derived from Cinnamomum spp. by using ITS and DNA marker. Genes Genom., vol. 39, pp. 101-109. DOI 10.1007/s13258-016-0476-5.
7 Tsai J.N., Ann P.J., Liou R.F. et.al. (2017) Phellinus noxius: molecular diversity among isolates from Taiwan and its phylogenetic relationship with other species of Phellinus based on sequences of the ITS region. Bot Stud., vol. 58, 9 p. DOI 10.1186/s40529-017-0162-1.
8 Rodrigues V. T., Smidt E. de C., Bolson M., F. de Barros. (2017) Phylogeny of Acianthera sect. Pleurobotryae (Orchidaceae: Pleurothallidinae), an endemic group of the Atlantic Forest. Braz. J. Bot., vol. 40, no 3, pp. 811-817. DOI 10.1007/s40415-017-0384-1.
9 Dong W., Liu H., Xu C., Zuo Y., Chen Z. and Zhou S. (2014) A chloroplast genomic strategy for designing taxon specific DNA mini-barcodes: a case study on ginsengs. BMC genetics, vol. 15, 138 p. DOI: 10.1186/s12863-014-0138-z.
10 Hebert P.D., Ratnasingham S., deWaard J.R. (2003) Barcoding animal life: cytochrome C oxidase subunit 1 divergences among closely related species. Proc. Biol. Sci., vol. 1, pp. 96-99. DOI: 10.1098/rsbl.2003.0025.
11 Hebert P.D., Cywinska A., Ball S.L., deWaard J.R. (2003) Biological identifications through DNA barcodes. Proc. Biol. Sci., vol. 270, pp. 313-321. DOI: 10.1098/rspb.2002.2218.
12 Matveeva N.A., Kurbatova L.E., SHahovskij A.M., Kishchenko E.M., Duplij V.P., Kvasko E.YU. (2011) Ispol'zovaniya nekotoryh yadernyh i hloroplastnyh genov dlya vidovogo opredeleniya rastenij Antarktiki [Use some of the nuclear and chloroplast genes to determine the species of Antarctic plants]. Mater. mezhdunar. nauch. konf. "Sovremennye aspekty geneticheskoj inzhenerii rastenij" Kiev, pp. 40-43.
13 Alvarez I., Wendel J.F. (2003) Ribosomal ITS sequences and plant phylogenetic inference. Mol. Phylogenet. Evol., vol. 29, pp. 417-434.
14 Kress W.J., Wurdac K.J., Zimmer E.A., Weight L.A., Jonsen D.H. (2005) Use of DNA barcodes to identify flowering plants. Proc. Natl. Acad. Sci, USA, vol. 102, pp. 8369-8374. DOI:10.1073/pnas.0503123102.
15 Cullings К.W., Vogler D.R. (1998) A 5.8S nuclear ribosomal RNA gene sequence database: applications to ecology and evolution. Mol. Ecol., vol. 7, pp. 919-923. DOI: 10.1046/j.1365-294x.1998.00409.x.
16 Pavlov N.P. (1961) Flora Kazahstana [Flora of Kazakhstan]. Alma-Ata: Nauka, vol. 1-9, 639 p.
17 Goloskokov V.P. (1972) Opredelitel' rastenij Kazahstana [The determinant of plants in Kazakhstan]. vol. 1-2, 571 p.
18 Iskakov M.A., Muranec A.P., Bajmukanov SH.K. (2014) Russko-kazahsko-latinskij slovar' nazvanij rastenij [Russian-Kazakh-Latin Dictionary Plant Names]. Astana, 116 p.
19 Tasova A.S., Bajmukanov Sh.K. (2014) Russko-kazahsko-latinskij slovar' nazvanij rastenij [Russian-Kazakh-Latin Dictionary Plant Names]. Astana, 204 p.
20 Doyle J.J., Doyle J.L. (1990) A rapid total DNA preparation procedure for fresh plant tissue. Focus, vol.12, pp. 13-15.
21 Embong Z., Wan Hitam W.H., Yean C. Y., Rashid N.H., Kamarudin B. et.al. (2008) Specific detection of fungal pathogens by 18S rRNA gene PCR in microbial keratitis. BMC Ophthalmology, vol. 8, 7 p. DOI:10.1186/1471-2415-8-7.
22 White T. J. et al. (1990) Amplification and direct sequencing of fungal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications. New York, pp. 315-322. DOI:10.1016/B978-0-12-372180-8.50042-1.
23 Allex C.F., Shavlik J.W., Blattner, F.R. (1999). Neural network input representations that produce accurate consensus sequences from DNA fragment assemblies. BioInformatics, vol. 15, no 9, pp. 723-728.
24 Tamura K., Peterson D., Peterson N., Stecher G., Nei M., and Kumar S. (2011) MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. Mol. Biol. Evol., vol. 28, pp. 2731-2739. DOI:10.1093/molbev/msr121.
25 Saitou N., Nei M. (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol., vol. 4, pp. 406-425. DOI.org/10.1093/oxfordjournals.molbev.a040454.
26 Felsenstein J. (1985) Confidence limits on phylogenies: An approach using the bootstrap. Evolution, vol. 39, pp. 783-791. DOI: 10.1111/j.1558-5646.1985.tb00420.x.
27 Tamura K., Nei M., Kumar S. (2004) Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc. Natl. Acad. Sci. USA, vol. 101, pp. 11030-11035. DOI:10.1073/pnas.0404206101.
28 Baldwin B.G., Sanderson M.J., Porter M. et.al. (1995) The ITS region of nuclear Ribosomal DNA: a valuable source of evidence on angiosperm phylogeny. Annals of the Missouri Botanical Garden, vol. 82, pp. 247-277.
29 Qiang Z., Yu-long D, Chen XU. et.al. (2005) A preliminary analysis of phylogenetic relationships of Arundinaria and related genera based on nucleotide sequences of nrDNA (ITS region) and cpDNA (trnL-F intergenic spacer). Journal of Forestry Research, vol. 16, no 1, pp. 5-8.
30 Jun W., Nian-He X. (2012) Ardisia crenata Complex (Primulaceae) Studies Using Morphological and Molecular Data. Botany, ISBN: 978-953-51-0355-4.
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Yessimseitova, A. K., Zhanybekova, Z. T., Muronets, A. P., Tasova, A. S., Shevtsov, A. B., Zhalmakanova, Z. Z., & Kakimzhanova, A. A. (2018). Identification and philogenetic analysis for flora of «Bayanaul» and «Burabay» national parks by using ITS. Experimental Biology, 74(1), 20–30. https://doi.org/10.26577/eb-2018-1-1312
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