Skip to main content
SpringerLink
Log in

Omics and Plant Genetic Resources: Towards Mining Potential Genes

  • Chapter
  • First Online:
Rediscovery of Genetic and Genomic Resources for Future Food Security

  • 471 Accesses

Abstract

Conservation of plant genetic resources is critical for increasing the resilience and agricultural production system to meet the increasing demand for future world food security. Ex situ and in situ conservation of plant genetic resources are particularly important for their efficient utilization in crop improvement programmes. Different types of gene pool techniques are important for restoration of gene pool of crops. Omics can enable further expansion of agricultural research in food, health, energy, chemical feedstock, and specialty chemicals while helping to preserve, enhance, and remediate the environment. Recent advances in genomic technologies especially omics-based technologies play a major role in improving the utilization of genetic resources and mining of potential genes. This chapter mainly emphasizes on importance of plant genetic resources and intervention of different omics-based technologies including genomics, transcriptomics, proteomics, and metagenomics for the identification, characterization, mining and introgression of the identified beneficial genes for disease and pest resistance, qualitative traits, drought tolerance traits, and their introgression into the plants for increasing the future world food security.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Log in via an institution
Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 169.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 219.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 219.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Abbreviations

cDNA:

Complementary deoxyribonucleic acid

CRISPR:

Clustered regularly interspaced short palindromic repeats

DNA:

Deoxyribonucleic acid

DREB:

Dehydration-responsive element binding

DT:

Drought tolerance

EST:

Expressed sequence tag

FAO:

Food and Agriculture Organization

GWAS:

Genome-wide association studies

GBS:

Genotyping-by-sequencing

GolS:

Galactinol synthase

LEA:

Late embryogenesis abundant proteins

MAS:

Marker-assisted selection

MS:

Mass spectrometry

NGS:

Next-generation sequencing

PAMP:

Pathogen-associated molecular pattern

PGR:

Plant genetic resources

PTM:

Post-translational modifications

QTL:

Quantitative trait loci

RGPs:

Restoration of gene pools

RNA:

Ribonucleic acid

RNAi:

RNA interference

SGS:

Second-generation sequencing

SNPs:

Single-nucleotide polymorphism

SMRT:

Single-Molecule Real-Time Sequencer

TFs:

Transcription factors

TGS:

Third-generation sequencing technologies

TILLING:

Targeting Induced Local Lesions in Genomes

References

  • Ahmad P, Ashraf M, Younis M, Hu X, Kumar A, Akram N, Al-Qurainy F (2012) Role of transgenic plants in agriculture and biopharming. Biotech Adv 30:524–540

    Article  CAS  Google Scholar 

  • Arbona V, Cadenas AG (2016) Metabolomics of disease resistance in crops. Omics in Plant Disease Resistance, Curr Issues Mol Biol:13–30

    Google Scholar 

  • Becker H (1993) Pflanzenzüchtung. Verlag Eugen Ulmer, Stuttgart

    Google Scholar 

  • Bhadauria V (2016) Omics in plant disease resistance. Curr Issues Mol Biol Book 19:1–2

    Google Scholar 

  • Bhadauria V, Melissa ML, Wong Kirstin E, Bett SB (2016) Wild help for enhancing genetic resistance in lentil against fungal diseases. Omics in Plant Disease Resistance, Curr Issues Mol Biol:3–6

    Google Scholar 

  • Budak H, Hussain B, Khan Z, Ozturk NZ, Ullah N (2015) From genetics to functional genomics: improvement in drought signaling and tolerance in wheat. Front Plant Sci 6:1–13

    Article  Google Scholar 

  • Chen X, Bhadauria V, Ma B (2016) Current status of proteomic studies on Defence responses in rice. Omics in Plant Disease Resistance, Curr Issues Mol Biol:7–12

    Google Scholar 

  • Claudino WM, Quattrone A, Biganzoli L, Pestrin M, Bertini I, Leo AD (2007) Metabolomics: available results, current research projects in breast Cancer, and future applications. J Clin Oncol 25:2840–2846

    Article  CAS  PubMed  Google Scholar 

  • Clouse S (2002) Brassinosteroids. In: Somerville CR, Meyerowitz EM (eds) The Arabidopsis book. Rockville, American Society of Plant Biologists, pp 1–23

    Google Scholar 

  • Cooper HD, Spillane C, Hodgkin T (2001) Broadening the genetic base of crops: an overview. In: Cooper HD, Spillane C, Hodgkin T (eds) Broadening the genetic base of crop production. CABI Publishing in cooperation with FAO and IPGRI, CAB International, Wallingford, pp 1–23

    Chapter  Google Scholar 

  • Cui F, Zhao W, Luo L, Kang L (2016) Rice responses and resistance to plant hopper-borne viruses at transcriptomic and proteomic levels. Omics in Plant Disease Resistance, Curr Issues Mol Biol 19:43–52

    Google Scholar 

  • Deshmukh R, Sonah H, Patil G, Chen W, Prince S, Mutava R, Vuong T, Valliyodan B, Nguyen HT (2014) Integrating omics approaches for abiotic stress tolerance in soybean. Front Plant Sci 5:1–12

    Article  Google Scholar 

  • Diapari M (2016) Linking biomarker and comparative omics to pathogens in legumes. Omics in Plant Disease Resistance, Curr Issues Mol Biol pp:137–144

    Google Scholar 

  • Diego F Gomez-Casati, Pagani MA, Busi MV, Vijai Bhadauria (2016a) Omics approaches for the engineering of pathogen resistant plants. Omics in plant disease resistance, Curr Issues Mol Biol 89–98

    Google Scholar 

  • FAO (1989) Annex to the international undertaking on plant genetic resources, conference resolution 5/89. Twenty- fifth sessions of the FAO conference, Rome, 11–29 November 1989. Food and Agricultural Organization of the United Nations, Rome

    Google Scholar 

  • FAO (1996a) Report on the state of the World’s plant genetic resources for food and agriculture, prepared for the international technical conference on plant genetic resources, Leipzig, Germany, 17–23 June 1996. Food and Agricultural Organization of the United Nations, Rome

    Google Scholar 

  • FAO (1996b) Global plan of action for the conservation and sustainable utilization of plant genetic resources and the Leipzig declaration, adopted by the international technical conference on plant genetic resources, Leipzig, Germany, 17–23 June 1996. Food and Agricultural Organization of the United Nations, Rome

    Google Scholar 

  • FAO (1998) The state of the World’s plant genetic resources for food and agriculture. FAO, Rome

    Google Scholar 

  • FAO (2010) Second report on the state of the World’s plant genetic resources for food and agriculture. Food and Agriculture Organization of the United Nations, Rome, Italy

    Google Scholar 

  • Feinberg AP (2007) Phenotypic plasticity and the epigenetics of human disease. Nature 447:433–440

    Article  CAS  PubMed  Google Scholar 

  • Fliser D, Novak J, Thongboonkerd V, Argiles A, Jankowski V, Girolami MA, Jankowski J, Mischak H (2007) Advances in urinary proteome analysis and biomarker discovery. J Am Soc Nephrol 18:1057–1071

    Article  CAS  PubMed  Google Scholar 

  • Francisco M, Soengas P, Velasco P, Bhadauria V, Cartea ME, Rodríguez VM (2016) Omics approach to identify factors involved in Brassica disease resistance. Omics in Plant Disease Resistance, Curr Issues Mol Biol 19:31–42

    Google Scholar 

  • Frankham R, Ballou JD, Briscoe DA, Karina H, McInnes KM (2009) Introduction to conservation genetics, 2nd edn. Cambridge University Press, Cambridge

    Google Scholar 

  • Gao JP, Lin HX (2007) Understanding abiotic stress tolerance mechanisms: recent studies on stress response in rice. J Integr Plant Biol 49(6):742–750

    Article  CAS  Google Scholar 

  • Gomez-Casati DF, Pagani MA, Busi MV, Bhadauria V (2016b) Omics approaches for the engineering of pathogen resistant plants. Curr Issues Mol Biol 19:89–98

    PubMed  Google Scholar 

  • Grandellis C, Vranych CV, Piazza A, Garavaglia BS, Gottig N, Ottado J (2016) An overview of proteomics tools for understanding plant Defence against pathogens. Omics in Plant Disease Resistance, Curr Issues Mol Biol pp:129–136

    Google Scholar 

  • Hallauer AR, Miranda JB (1981) Quantitative genetics in maize breeding. Iowa State University Press, Ames

    Google Scholar 

  • Hanash SM, Pitteri SJ, Faca AM (2008) Mining the plasma proteome for cancer biomarkers. Nature 452:571–579

    Article  CAS  PubMed  Google Scholar 

  • Harlan JR, de JMJ W (1971) Toward a rational classification of cultivated plants. Taxon 20:509–517

    Article  Google Scholar 

  • Hoisington D, Khairallah M, Reeves T, Ribaut J-M, Bent S, Skovmand B, Taba S, Warburton M (1999) Plant genetic resources: what can they contribute toward increased crop productivity? Proc Natl Acad Sci U S A 96:5937–5943

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Hu Q, Hansen LN, Laursen J, Dixelius C, Andersen SB (2002) Intergeneric hybrids between Brassica napus and Orychophragmus violaceus containing traits of agronomic importance for oilseed rape breeding. Theor Appl Genet 105:834–840

    Article  CAS  PubMed  Google Scholar 

  • Jackson O, Lay JR, Borgmann S, Liyanage R, Charles L, Wilkins (2006) Problems with the “omics”. Trends Anal Chem 25(11):1046–1056

    Google Scholar 

  • Jones TA (2003) Transcriptomics technologies. PloS Comput Biol:1–23

    Google Scholar 

  • Lowe R, Shirley N, Bleackley M, Dolan S, Shafee T (2017) Transcriptomics technologies. PLoS Comput Biol 13(5):e1005457

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Maxted N, Kell SP (2003). Biodiversity and conservation: Plant diversity, conservation and use. Encyclopedia of Appl Plant Sci

    Google Scholar 

  • Morrison N, Cochrane G, Faruque N, Tatusova T, Tateno Y, Hancock D, Field D (2006) Concept of sample in OMICS technology. OMICS A J Integr Biol 10(2):127–137

    Article  CAS  Google Scholar 

  • Oosten MJ, Van CA, Punzo P, Landi S, Ruggiero A, Batelli G, Grillo S (2016) In: Hossain MA, Wani SH, Bhattacharjee S, Burritt DJ, Phan Tran L-S (eds) Drought stress tolerance in plants, vol Vol 2. Springer, Berlin, pp 39–70

    Chapter  Google Scholar 

  • Ouborg NJ, Vergeer P, Mix C (2006) The rough edges of the conservation genetics paradigm for plants. J Ecol 94:1233–1248

    Article  Google Scholar 

  • Padulosi S, Hodgkin T, Williams JT, Haq N (2002) Underutilized crops: trends, challenges and opportunities in the 21st century. In: Engels JMM, Rao VR, Brown AHD, Jackson MT (eds) Managing plant genetic diversity. IPGRI/CABI Publishing, Wallingford, pp 323–338

    Google Scholar 

  • Pritham OB (2015) Crop abiotic and biotic stress monitoring by using remote sensing. Trends Biosci 8(9):2319–2320

    Google Scholar 

  • Ramsden JJ (2009) Metabolomics and metabonomics. Bioinformatics:1–6

    Google Scholar 

  • Sahebi M, Hanafi MM, Rafii MY, Mahmud T, Azizi P, Osman M, Atabaki N ( 2018) Improvement of drought tolerance in rice (Oryza sativa L.): genetics, genomic tools, and the WRKY gene family. BioMed Res Intl 1–20

    Google Scholar 

  • Shinozaki K, Yamaguchi-Shinozaki K (2007) Gene networks involved in drought stress response and tolerance. J Exp Bot 58:221–227

    Article  CAS  PubMed  Google Scholar 

  • Simmonds NW (1993) Introgression and incorporation. Strategies for the use of crop genetic resources. Biol Rev 68:539–562

    Article  Google Scholar 

  • Smith B, Ceusters W, Klagges B (2005) Relations in biomedical ontologies. Genome Biol:6–46

    Google Scholar 

  • Syvanen AC (2001) Accessing genetic variation: genotyping single nucleotide polymorphisms. Nat Rev Genet 2(12):930–942

    Article  CAS  PubMed  Google Scholar 

  • Taji T, Ohsumi C, Iuchi S, Seki M, Kasuga M, Kobayashi M, Yamaguchi-Shinozaki K, Shinozaki K (2002) Important roles of drought- and cold-inducible genes for Galactinol synthase in stress tolerance in Arabidopsis thaliana. Plant J 29(4):417–426

    Article  CAS  PubMed  Google Scholar 

  • Tanksley SD, McCouch S (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277:1063–1066

    Article  CAS  PubMed  Google Scholar 

  • Thudi M, Li Y, Jackson SA, May GD, Varshney RK (2012) Current state-of-art of sequencing technologies for plant genomics research. Brief Funct Genom 11(1):3–11

    Article  CAS  Google Scholar 

  • Umezawa T, Fujita M, Fujita Y, Yamaguchi-Shinozaki K, Shinozaki K (2006) Engineering drought tolerance in plants: discovering and tailoring genes unlock the future. Curr Opin Biotech 17:113–122

    Article  CAS  PubMed  Google Scholar 

  • Vinebrooke RD, Cottingham KL, Norberg J, Scheffer M, Dodson SI, Maberly SC, Sommer U (2004) Impacts of multiple stressors on biodiversity and ecosystem functioning: the role of species co-tolerance. Oikos 104:451–457

    Article  Google Scholar 

  • Wambugu PW, Ndjiondjop M-N, Robert J, Henry RJ (2018) Role of genomics in promoting the utilization of plant genetic resources in gene banks. Brief Funct Genom 17(3):198–206

    Article  CAS  Google Scholar 

  • Zhang JZ, Creelman RA, Zhu JK (2004) From laboratory to field. Using information from Arabidopsis to engineer salt, cold, and drought tolerance in crops. Plant Physiol 135:615–621

    Article  CAS  PubMed  PubMed Central  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Department of Plant Bioechnology, College of Agriculture, UAS, GKVK, Bangalore, Karnataka, India

    Nagesha N & Praveen L. Bennur

Authors
  1. Nagesha N
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Praveen L. Bennur
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Nagesha N .

Editor information

Editors and Affiliations

  1. School of Biotechnology, Sher-e-Kashmir University of Agricultural Sciences & Technology of Jammu, Jammu, Jammu and Kashmir, India

    Romesh Kumar Salgotra

  2. Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences & Technology of Kashmir, Srinagar, Jammu and Kashmir, India

    Sajad Majeed Zargar

Rights and permissions

Reprints and permissions

Copyright information

© 2020 Springer Nature Singapore Pte Ltd.

About this chapter

Check for updates. Verify currency and authenticity via CrossMark

Cite this chapter

N, N., Bennur, P.L. (2020). Omics and Plant Genetic Resources: Towards Mining Potential Genes. In: Salgotra, R., Zargar, S. (eds) Rediscovery of Genetic and Genomic Resources for Future Food Security. Springer, Singapore. https://doi.org/10.1007/978-981-15-0156-2_4

Download citation

Publish with us

Policies and ethics

Search

Navigation