2021, Number 4
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Rev Educ Bioquimica 2021; 40 (4)
Describiendo la biodiversidad: trabajo de laboratorio en biología molecular a través de investigación guiada en un proyecto de código de barras de DNA
Villalobos-Arámbula AR, Barragán RDM
Language: Spanish
References: 24
Page: 167-177
PDF size: 403.71 Kb.
ABSTRACT
Documentation of biodiversity is increasingly dependent of DNA sequences, a method
known as DNA barcoding. The results of the workflow stages of the semi-portable
of the Barcode BioMol UDEG (BBG) project are presented, which consist of: DNA
extraction, amplification by polymerase chain reaction, purification of PCR products,
DNA sequencing, and comparison with a database. Furthermore, they participated
in the formulation of questions, experimental design, data collections, and analysis
to prepare a scientific report. 62 students to get involved, who in addition to their
training in molecular biology techniques, they contributed to 21 to ITS sequences
from fungi, two COI from ants and three from a plant chloroplast DNA (rbcL, matK,
and trnH-psbA), which allowed the taxonomic determination of 24 specimens (11 at
the species level, two close to the species, 9 to the genus and one specimen to the
family) and evidenced the achievement of scientific skills from the students.
REFERENCES
Wei CA, Woodin T (2011) Undergraduate research experiences in biology: alternatives to the apprenticeship model. CBE-Life Sci Educ 10:123-131.
Murthy PP, Thompson M, Hungwem K (2014) Development of a semester-long, inquirybased laboratory course in upper-level biochemistry and molecular biology. J Chem Educ 91:1909-1917.
Henter HJ, Imondi R, James K, Spencer D, Steinke D (2016) DNA barcoding in diverse educational settings: five case studies. Phil. Trans. R. Soc. B 371: 20150340.
Marizzi C, Florio A, Lee M, Khalfan M, Ghiban C, Nash B, et al. (2018) DNA barcoding Brooklyn (New York): A first assessment of biodiversity in Marine Park by citizen scientists. Plos One 13: e0199015.
Hebert PD, Ratnasingham S, deWaard JR (2003) Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Proc R Soc Lond B (Suppl.) 270:S96-S99
Hebert PD, Cywinska A, Ball SL, deWaard JR (2003) Biological identifications through DNA barcodes. Proc R Soc Lond B 270:313-321.
Begerow D, Nilsson H, Unterseher M, Maier W (2010) Current state and perspectives of fungal DNA barcoding and rapid identification procedures. Appl Microbiol Biotechnol 87: 99- 108.
Hollingsworth PM, Forrest LL, Spouge JL, Hajibabaei M, Ratnasingham S, van der Bank M, et al. (2009) A DNA barcode for land plants. Proc Natl Acad Sci USA 106:12794-12797.
Schoch CL, Seifert KA, Huhndorf S, Robert V, Spouge JL, Levesque CA, Chen W (2012) Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proc Natl Acad Sci USA 109:6241-6246.
Aljanabi SM, Martinez I (1997) Universal and rapid salt-extraction of high quality genomic DNA for PCR-based techniques. Nucleic Acids Res 25:4692-4693.
Raja HA, Miller AN, Pearce CJ, Oberlies NH (2017) Fungal identification using molecular tools: a primer for the natural products research community. J Nat Prod. 80:756-770.
Gardes M, Bruns TD (1993) ITS primers with enhanced specificity for basidiomycetesapplication to the identification of mycorrhizae and rusts. Mol Ecol 2:113-118.
Kretzer A, Li Y, Szaro T, Bruns TD (1996) Internal transcribed spacer sequences from 38 recognized species of Suillus sensu lato: phylogenetic and taxonomic implications. Mycologia 88:776-785.
Vilgalys R, Hester M (1990) Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species. J Bacteriol 172:4239- 4246.
Folmer O, Black M, Hoeh W, Lutz R, Vrijenhoek R (1994) DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol Mar Biol Biotechnol 3:294-299.
Benson DA, Karsch-mizrachi I, Lipman DJ, Ostell J, Wheeler DL (2005) GenBank. Nucleic Acids Res 33:D34-D38.
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403-410.
Hughes KW, Petersen RH, Lickey EB (2009) Using heterozygosity to estimate a percentage DNA sequence similarity for environmental species’ delimitation across basidiomycete fungi. New Phytol 182:795-798.
Lücking R, Aime MC, Robbertse B, Miller AN, Ariyawansa HA, Aoki T, et al. (2020) Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding? IMA Fungus11:14.
Smith ME, Douhan GW, Rizzo DM (2007) Intra-specific and intra- sporocarp ITS variation of ectomycorrhizal fungi as assessed by rDNA sequencing of sporocarps and pooled ectomycorrhizal roots from a Quercus woodland. Mycorrhiza 18:15-22.
Simon UK, Weiß M (2008) Intragenomic variation of fungal ribosomal genes is higher than previously thought. Mol Biol Evo25:2251- 2254.
Badotti F, Silva de Oliveira F, Garcia CF, Martins Vaz,AB, Camargos Fonseca PL, Alves Nahum L, et al. (2017) Effectiveness of ITS and sub-regions as DNA barcode markers for the identification of Basidiomycota (Fungi). BMC Microbiol 17:42.
Ratnasingham S, Hebert PD (2007) BOLD: The Barcode of Life Data System (http:// www. barcodinglife. org). Mol Ecol Notes 7:355–364.
Stielow JB, Lévesque CA, Seifert KA, Meyer W, Irinyi L, Smits D, et al. (2015). One fungus, which genes? Development and assessment of universal primers for potential secondary fungal DNA barcodes. Persoonia 35: 242-263.