DNA barcodes of the vascular flora of the Altai Mountain Country: type material of the Herbarium ALTB
Abstract
The article presents first data of the work on DNA barcoding of type specimens of ALTB Herbarium (Barnaul, Russia). Obtained sequences of ITS and trnL-trnF, trnH-psbA markers of DNA were deposited in NCBI GenBank, and corresponding dataset was published in the GBIF (Global Biodiversity Information Facility).
Downloads
Metrics
References
Chichorro F., Juslen A., Cardoso P. 2019. A review of the relation between species traits and extinction risk. Biological Conservation 237: 220–229. DOI: 10. 1016/j.biocon.2019.07.001
Chinnappareddy L. R. D., Khandagale K., Chennareddy A., Ramappa V. G. 2013. Molecular markers in the improvement of Allium crops. Czech J. Genet. Plant Breed. 49: 131–139. DOI: 10.17221/111/2013-CJGPB
Erst A. S., Nikulin A. Yu., Nikulin V. Yu., Ebel A. L., Zibzeev E. V., Sharples. M. T., Baasanmunkh S., Choi H. JAE, Olonova M. V., Pyak A. I., Gureyeva I. I., Erst T. V., Kechaykin A. A., Luferov A., Maltseva S. Yu., Nobis M., Lian L., Wang W. 2022. Distribution analysis, updated checklist, and DNA barcodes of the endemic vascular flora of the Altai mountains, a Siberian biodiversity hotspot. Systematics and Biodiversity 20(1): 1–30. DOI: 10.1080/14772000.2022.2049391
Guo M., Yuan C., Tao L., Cai Ya., Zhang W. 2022. Life barcoded by DNA barcodes. Conservation Genetics Resources 14: 351–365. DOI: 10.1007/s12686-022-01291-2
Hebert P. D. N., Stoeckle M. Y., Zemlak T. S., Francis C. M. 2004. Identification of birds through DNA Barcodes. PLoS Biology 2:e312. DOI: 10.1371/journal.pbio.0020312
Herden T., Hanelt P., Friesen N. 2016. Phylogeny of Allium L. subgenus Anguinum (G. Don. ex W. D. J. Koch) N. Friesen (Amaryllidaceae). Molecular Phylogenetics and Evolution 95: 79–93. DOI: 10.1016/j.ympev.2015.11.004
Камелин Р. В. (ред.). Флора Алтая. Т. 1. Барнаул: АзБука, 2005. 340 с.
Колтунова А. М., Синицына Т. А., Скапцов М. В., Уварова О. В., Куцев М. Г. Молекулярно-генетические маркеры растений // От биопродуктов к биоэкономике: материалы III межрегион. науч.-практ. конф. (с междунар. участием) (г. Барнаул, 7–8 ноября 2019 г.). Барнаул: Изд-во Алт. ун-та, 2019. С. 72–78.
Kress W. J., Erickson D. L. 2007. A two-locus global DNA barcode for land plants: the coding rbcL gene complements the non-coding trnH–psbA spacer region. PLoS ONE 2:e508. DOI: 10.1371/journal.pone.0000508
Куцев М. Г. Фрагментный анализ ДНК растений: RAPD, DAF, ISSR. Барнаул: ARTIKA, 2009. 164 с.
Куцев М. Г., Уварова О. В., Синицына Т. А. Набор синтетических олигонуклеотидов для амплификации и секвенирования ITS1-5,8S-ITS2 сосудистых растений. Патент на изобретение № 2528063, правообладатель ФГБОУ ВПО «Алтайский государственный университет», выдан 16.07.14, приоритет 18.02.2013.
Lahaye R., van der Bank M., Bogarin D., Warner J., Pupulin F., Gigot G., Maurin O., Duthoit S., Barraclough T. G. 2008. DNA barcoding the floras of biodiversity hotspots. Proc. Natl. Acad. Sci. U.S.A. 105(8): 2923–2928. DOI: 10.1073/pnas.0709936105
Loera-Sánchez M., Studer B., Kölliker R. 2020. DNA barcode trnH-psbA is a promising candidate for efficient identification of for-age legumes and grasses. BMC Res Notes 13: 35. DOI: 10.1186/s13104-020-4897-5
Mitrova K., Svoboda P., Ovesna J. 2015. The selection and validation of a marker set for the differentiation of onion cultivars from the Czech Republic. Czech J. Genet. Plant Breed. 51(2): 62–67. DOI: 10.17221/16/2015-CJGPB
Olson D., Dinerstein E. 2002. The global 200: Priority ecoregions for global conservation. Annals of the Missouri Botanical Garden 89(2): 199–224. DOI: 10.2307/3298564
Shaw J., Lickey E. B., Schilling E. E., Small R. L. 2007. Comparison of whole chloroplast genome sequences to choose noncoding regions for phylogenetic studies in angiosperms: the tortoise and the hare III. Am. J. Bot. 94: 275–288. DOI: 10.3732/ajb.94.3.275
Shneyer V. S., Rodionov A. V. 2019. Plant DNA Barcodes. Biology Bulletin Reviews, 9, 4: 295–300. DOI: 10.1134/S207908641904008X
Sinitsyna T. A., Herden T., Friesen N. 2016. Dated phylogeny and biogeography of the Eurasian Allium section Rhizirideum (Amaryllidaceae). Plant Syst. Evol. 302(9): 1311–1328. DOI: 10.1007/s00606-016-1333-3
Smirnov S., Skaptsov M., Shmakov A., Fritsch R., Friesen N. 2017. Spontaneous hybridization among Allium tulipifolium and A. robustum (Allium subg. Melanocrommyum, Amaryllidaceae) under cultivation. Phytotaxa 303(2): 155–164. DOI: 10.11646/phytotaxa.303.2.5
Taberlet P., Coissac E., Pompanon F., Gielly L., Miquel C., Valentini A. 2007. Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding. Nucleic Acids Res. 35, e14. DOI: 10.1093/nar/gkl938
Taylor H. R., Harris W. E. 2012. An emergent science on the brink of irrelevance: A review of the past 8 years of DNA barcoding. Molecular Ecology Resources 12: 377–388. DOI: 10.1111/j.1755-0998.2012.03119.x
Vaganov A. V., Shmakov A. I., Gudkova P. D. 2019. Global data on biodiversity of the Altai mountain country, presented in the world's scientific depositories. Acta Biologica Sibirica 5(2): 95–101. DOI: 0.14258/abs.v5.i2.5937
Vaganov A. V., Shmakov A. I., Smirnov S. V., Usik N. A., Shibanova A. A., Kechaykin A. A., Kosachev P. A., Kopytina T. M., Zholnerova E. A., Medvedeva K. E., Zaikov V. F., Sinitsyna T. A., Shalimov A. P., Antonyuk E. V., Gudkova P. D., Dmitriev D. A., Batkin A. A., Kasatkin D. E., Belkin D. L. 2021. Virtual Herbarium ALTB: collection of vascular plants of the Altai Mountain Country. Biodiversity Data Journal 9: e67616.
Vaganov A. V., Sinitsyna T. A., Kutsev M. G., Zholnerova E. A., Kechaykin A. A., Kosachev P. A., Smirnov S. V., Shmakov A. I. 2022. DNA barcodes of the vascular flora of the Altai Mountain Country: type material of the Herbarium ALTB. Version 1.2. Altai State University. Occurrence dataset (accessed via GBIF.org on 2022-11-22). DOI: 10.15468/gtxnbz
Vu H., Le L. 2019. Bioinformatics analysis on DNA barcode sequences for species identification: a review. Annu. Res. Rev. Biol. 34(1): 1–12.
Yao H., Song J., Liu C., Luo K., Han J., Li Y., Pang X., Xu H., Zhu Y., Xiao P., Chen S. 2010. Use of ITS2 region as the universal DNA barcode for plants and animals. PLoS ONE 5(10): e13102. DOI: 10.1371/journal.pone.0013102
Turczaninowia is a golden publisher, as we allow self-archiving, but most importantly we are fully transparent about your rights.
Authors may present and discuss their findings ahead of publication: at biological or scientific conferences, on preprint servers, in public databases, and in blogs, wikis, tweets, and other informal communication channels.
Turczaninowia allows authors to deposit manuscripts (currently under review or those for intended submission to Turczaninowia) in non-commercial, pre-print servers such as ArXiv.
Authors who publish with this journal agree to the following terms:
- Authors retain copyright and grant the journal right of first publication with the work simultaneously licensed under a Creative Commons Attribution License that allows others to share the work with an acknowledgement of the work's authorship and initial publication in this journal.
- Authors are able to enter into separate, additional contractual arrangements for the non-exclusive distribution of the journal's published version of the work (e.g., post it to an institutional repository or publish it in a book), with an acknowledgement of its initial publication in this journal.
- Authors are permitted and encouraged to post their work online (e.g., in institutional repositories or on their website) prior to and during the submission process, as it can lead to productive exchanges, as well as earlier and greater citation of published work (See The Effect of Open Access).