The Application of Genetic Marker for Diversity Assessment and Conserving of Plant Genetic Resource

Authors

  • Wakuma Merga Ethiopian Institute of Agricultural Research, Teppi Agricultural Research center
  • Abukiya Getu Ethiopian Institute of Agricultural Research, Teppi Agricultural Research Center

DOI:

https://doi.org/10.47743/jemb-2023-93

Keywords:

Germplasm Conservation, DNA, Genome editing, Marker assisted selection, Quantitative Trait Loci, Polymerase Chain Reaction,

Abstract

Several molecular marks have been used for various purposes since the beginning of contemporary molecular technology: Genetic resource characterization, core genetic resource collection, mapping, marker-assisted selection, and marker-assisted back crossing etc. The variety of all plant species, their genetic make-up, and the environments in which they dwell are considered to be components of biological diversity. Plant classification and identification can be done most quickly and simply using morphological examination. It has been established that molecular markers are effective instruments for evaluating genetic diversity in groups and individual individuals, as well as germplasm resources. To preserve biodiversity, more than just genetic testing and DNA polymorphism detection are needed. It examines significant issues regarding managing plant germplasm both ex situ and in situ in order to support decision-making. Significant progress has been made in recent years in mapping, tagging, and isolating many important genes for agriculture using molecular markers like (Restriction Fragment Length Polymorphisms, Random Amplified Polymorphic DNAs, Amplified Fragment Length Polymorphisms Simple Sequence Repeats and Single Nucleotide Polymorphism).  Each marking technique has unique benefits, drawbacks, and applications. If one was aware of the presence of relevant traits, genes, and alleles one might make judgments on the extension of accessions and the preservation of seed stocks to meet an anticipated rise in demand for materials. By including genotypes with well-known and useful genes and alleles in the core collections, breeders can use them. Utilizing crop plant genetic resources will be simpler as a result, increasing their potential.

 

 

Author Biography

Abukiya Getu, Ethiopian Institute of Agricultural Research, Teppi Agricultural Research Center

 

 

References

Agarwal M, Shrivastava N, Padh H., 2008. Advances in molecular marker techniques and their applications in plant sciences. Plant Cell Rep 27:617–31.

Ali Z, Eid A, Ali S, Mahfouz MM (2018) Pea early-browning virusmediated genome editing via the CRISPR/Cas9 system in Nicotiana benthamiana and Arabidopsis. Virus Res 244:333–337. https://doi.org/1 0.1016/j.virusres.2017.10.009

Atwell S, Huang YS, Vilhjálmsson BJ, Willems G, Horton M, Li Y, Nordborg M (2010) Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Nature 465(7298):627–631. https://doi.org/10.1038/na ture08800

Cooper, D. N., B. A. Smith, H. J. Cooke, S. Niemann, and J. Schmidtke, 1985. An estimate of unique DNA sequence heterozygosity in the human genome. Hum.Genet. 69(3): 201-205

FAO/IAEA 2002. Division of Nuclear Techniques in Food and Agriculture. international atomic energy agency, Vienna.

Feng Z, Zhang B, Ding W, Liu X, Yang DL, Wei P, Cao F, Zhu S, Zhang F, Mao Y, Zhu JK (2013) Efficient genome editing in plants using a CRISPR/Cas system. Cell Res 23(10):1229–1232. https://doi.org/10.1038/cr.2013.114

Ferreira ME (2006) Molecular analysis of gene banks for sustainable conservation and increased use of crop genetic resources. In: Ruane J, Sonnino A (eds) The role of biotechnology in exploring and protecting agricultural genetic resources, FAO, Rome. pp 121–127

Hasan et al. Journal of Genetic Engineering and Biotechnology (2021) 19:128 Pp 15-26 the construction of multiple biparental cross population (e.g. NAM or MAGIC) may be helpful

Hsu PD, Scott DA, Weinstein JA, Ran FA, Konermann S, Agarwala V, Li Y, Fine EJ, Wu X, Shalem O, Cradick TJ, Marraffini LA, Bao G, Zhang F (2013) DNA targeting specificity of RNA-guided Cas9 nucleases. Nat Biotechnol 31(9):827–832. https://doi.org/10.1038/nbt.2647 .

Huang X, Zhao Y, Li C, Wang A, Zhao Q, Li W, Han B (2012) Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm. Nat Genet 44(1):32–39. https://doi.org/10.103 8/ng.1018

Joint, FAO. (2002). Mutant germplasm characterization using molecular markers. A manual (No. IAEA-TCS--19). Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture.

Juliana P, Singh RP, Singh PK, Poland JA, Bergstrom GC, Huerta-Espino J, Bhavani S, Crossa J, Sorrells ME (2018) Genome-wide association mapping for resistance to leaf rust, stripe rust and tan spot in wheat reveals potential candidate genes. Theor Appl Genet 131(7):1405–1422. https://doi.org/10.1 007/s00122-018-3086-6

Kahl, G. (2001). Dictionary of gene technology (No. Ed. 2). Wiley-VCH Verlag GmbH.

Kisha, T. J., Sneller, C. H., & Diers, B. W. (1997). Relationship between genetic distance among parents and genetic variance in populations of soybean. Crop Science, 37(4), 1317-1325.

Kurowska M, Daszkowska-Golec A, Gruszka D, Marzec M, Szurman M, Szarejko I, Maluszynski M (2011) TILLING – a shortcut in functional genomics. J Appl Genet 52(4):371–390. https://doi.org/10.1007/s13353-011- 0061-1

Lanteri S, Barcaccia G (2006) Molecular markers based analysis for crop germplasm preservation. In: Ruane J, Sonnino A (eds) The role of biotechnology in exploring and protecting agricultural genetic resources, FAO, Rome. pp 55–66

Lanteri Sergio and Barcaccia Gianni, 2005. Molecular markers based analysis for crop

Li H, Peng Z, Yang X, Wang W, Fu J, Wang J, Yan J (2013) Genome-wide association study dissects the genetic architecture of oil biosynthesis in maize kernels. Nat Genet 45(1):43–50. https://doi.org/10.1038/ng.2484

Lozano-Juste J, Cutler SR (2014) Plant genome engineering in full bloom. Trends Plant Sci 19(5):284–287. https://doi.org/10.1016/j.tplants.2014.02.014

Makarova KS, Haft DH, Barrangou R, Brouns SJ, Charpentier E, Horvath P, Moineau S, Mojica FJ, Wolf YI, Yakunin AF, van der Oost J, Koonin EV (2011) Evolution and classification of the CRISPR– Cas systems. Nat Rev Microbiol 9(6):467–477. https://doi.org/10.1038/nrmicro2577

McCallum CM, Comai L, Greene EA, Henikoff S (2000) Targeting induced local lesions in genomes (TILLING) for plant functional genomics. Plant Physiol 123(2):439–442. https://doi.org/10.1104/pp.123.2.439

Morgante M, OlivieriAM (1993) PCR-amplified microsatellites as markers in plant genetics. Plant J 3:175–182

Niewoehner O, Jinek M, Doudna JA (2013) Evolution of CRISPR RNA recognition and processing by Cas6 endonucleases. Nucleic Acids Res 42(2): 1341–1353. https://doi.org/10.1093/nar/gkt922

Papa R, Gepts P (2003) Asymmetry of gene flow and differential geographical structure of molecular diversity in wild and domesticated common bean (Phaseolus vulgaris L.) from Mesoamerica. TheorAppl Genet 106:239–250

Powell, W., G. C. Machray, and J. Provan, 1996. Polymorphism revealed by simple sequence repeats. Trends in Plant Sci. 1(7): 215-222

Pradeep Reddy, M., Sarla, N. and Siddiq, E.A., 2002. Inter simple sequence repeat (ISSR) polymorphism and its application in plant breeding. euphytica, 128, pp.9-17.

Primmer CR, 2009. From conservation genetics to conservation genomics. Ann N Y Acad Sci 1162:357–68.

Qi LS, Larson MH, Gilbert LA, Doudna JA, Weissman JS, Arkin AP, Lim WA (2013) Repurposing CRISPR as an RNA-guided platform for sequencespecific control of gene expression. Cell 152(5):1173–1183. https://doi.org/1 0.1016/j.cell.2013.02.022

Shan Q, Wang Y, Li J, Zhang Y, Chen K, Liang Z, Zhang K, Liu J, Xi JJ, Qiu JL, Gao C (2013) Targeted genome modification of crop plants using a CRISPRCas system. Nat Biotechnol 31(8):686–688. https://doi.org/10.1038/nbt.2650

Shiva V (1994) Agriculture and food production. UNESCO/ Environmental Education Dossiers No. 9 (May): 2–3

Spooner, D. (2005). Molecular markers for genebank management (No. 10). Bioversity International.

Svitashev S, Young JK, Schwartz C, Gao H, Falco SC, Cigan AM (2015) Targeted mutagenesis, precise gene editing, and site-specific gene insertion in maize using Cas9 and guide RNA. Plant Physiol 169(2):931–945. https:// doi.org/10.1104/pp.15.00793

Tautz, D. and M. Rentz, 1984. Simple sequences are ubiquitous repetitive components of eucariotic genomes. Nature. 322: 652-656

Tautz, D., 1989. Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res. 17: 6463-6471

Uddin, M.S. and Cheng, Q., 2015. Recent application of biotechniques for the improvement of mango research. In Applied plant genomics and biotechnology (pp. 195-212). Woodhead Publishing.

Uddin, M.S. and Cheng, Q., 2015. Recent application of biotechniques for the improvement of mango research. In Applied plant genomics and biotechnology (pp. 195-212). Woodhead Publishing.

Van Treuren and M.C. de Vicente. 2005. Molecular markers for genebank management. IPGRI Technical Bulletin No. 10. International Plant Genetic Resources Institute, Rome, Italy.

Vendramin G, Morgante M (2006) Genetic diversity in forest tree populations and conservation:analysis of neutral and adaptive variation. In: Ruane J, Sonnino A (eds) The role of biotechnology in exploring and protecting agricultural genetic resources, FAO, Rome, pp 145–147

Zargar SM, Raatz B, Sonah H, Bhat JA, Dar ZA, Agrawal GK, Rakwal R (2015) Recent advances in molecular marker techniques: insight into QTL mapping, GWAS and genomic selection in plants. J Crop Sci Biotechnol 18(5):293–308. https://doi.org/10.1007/s12892-015-0037-5

Zhao J, Perez M, Hu J, Salas FMG (2016) Genome-wide association study for nine plant architecture traits in sorghum. Plant Genome 9(2):1–14

Published

2023-07-19 — Updated on 2023-10-11

How to Cite

Merga, W., & Getu, A. (2023). The Application of Genetic Marker for Diversity Assessment and Conserving of Plant Genetic Resource . Journal of Experimental and Molecular Biology, 24(3), 195–206. https://doi.org/10.47743/jemb-2023-93

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