Abstract
The intermixing of hereditary material between crossable species occurs invariably in nature. Today, genome engineering tools integrated with plant breeding, allow precise intermixing of genetic traits for the improvement of crop species. However, this requires the identification of candidate gene(s) from genetic resources within or outside the gene pool. When the genes and regulatory elements are derived from compatible species, as is in nature, it is called cisgenesis. Development of cisgenic crops requires genome information of the target plant; identification, isolation, characterization, and cloning of the desired gene(s) from a cross-compatible donor and a vector system for the precise delivery into the recipient. Cisgenesis has been successfully used to enhance crop yield; resistance against important biotic and abiotic stresses and to enhance biomass of trees for biofuel production. Application of cisgenesis in a wide variety of crops requires novel strategies and detailed survey of their genetically compatible relatives. Additionally, mining of genes associated with target traits needs to be explored along with strong promoter systems for optimum expression of the target genes. In this chapter, we review the potential of cisgenesis, its applications, advantages, limitations, regulatory concerns, and strategies to maximize its applicability in the improvement of crops.
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References
Ahmad N, Michoux F, Lössl AG, Nixon PJ et al (2016) Challenges and perspectives in commercializing plastid transformation technology. J Exp Bot 67(21):5945–5960. https://doi.org/10.1093/jxb/erw360
Bajaj S, Puthigae S, et al (2008) Towards engineering drought tolerance in perennial ryegrass using its own genome. Paper presented at the 6th Canadian plant genomics workshop
Belfanti E, Silfverberg-Dilworth E, Tartarini S, Patocchi A, Barbieri M, Zhu J, Vinatzer BA, Gianfranceschi L, Gessler C, Sansavini S (2004) The HcrVf2 gene from a wild apple confers scab resistance to a transgenic cultivated variety. Proc Natl Acad Sci 101(3):886–890
Biggs A (1990) Apple scab. Compendium of apple and pear diseases. pp 6–9
Caro M, Cruz V et al (1991) Salinity tolerance of normal-fruited and cherry tomato cultivars. Plant Soil 136(2):249–255
Cecchini E, Mulligan BJ et al (1998) Characterization of gamma irradiation-induced deletion mutations at a selectable locus in Arabidopsis. Mutat Res/Fundam Mol Mech Mutagen 401(1–2):199–206
De Marchi E, Cavaliere A et al (2019) Can consumer food choices contribute to reduce environmental impact? The case of cisgenic apples. Sci Total Environ 681:155–162. https://doi.org/10.1016/j.scitotenv.2019.05.119
de Vetten N, Wolters A-M et al (2003) A transformation method for obtaining marker-free plants of a cross-pollinating and vegetatively propagated crop. Nat Biotechnol 21(4):439
Delwaide AC, Nalley LL et al (2015) Revisiting GMOs: are there differences in European consumers’ acceptance and valuation for cisgenically versus transgenically bred rice? PLoS ONE 10(5):e0126060. https://doi.org/10.1371/journal.pone.0126060
El-Kharbotly A, Leonards-Schippers C et al (1994) Segregation analysis and RFLP mapping of the R1 and R3 alleles conferring race-specific resistance to Phytophthora infestans in progeny of dihaploid potato parents. Mol Gen Genet 242(6):749–754. https://doi.org/10.1007/bf00283432
Eriksson D, Stymne S et al (2014) The slippery slope of cisgenesis. Nat Biotechnol 32(8):727. https://doi.org/10.1038/nbt.2980
Espinoza C, Schlechter R et al (2013) Cisgenesis and intragenesis: new tools for improving crops. Biol Res 46(4):323–331. https://doi.org/10.4067/S0716-97602013000400003
Espley RV, Hellens RP et al (2007) Red colouration in apple fruit is due to the activity of the MYB transcription factor, MdMYB10. Plant J 49(3):414–427. https://doi.org/10.1111/j.1365-313X.2006.02964.x
Ewing EE, Šimko I et al (2000) Genetic mapping from field tests of qualitative and quantitative resistance to Phytophthora infestans in a population derived from Solanum tuberosum and Solanum berthaultii. Mol Breeding 6(1):25–36
Forsbach A, Schubert D et al (2003) A comprehensive characterization of single-copy T-DNA insertions in the Arabidopsis thaliana genome. Plant Mol Biol 52(1):161–176
Fraley RT, Rogers SG et al (1983) Expression of bacterial genes in plant cells. Proc Natl Acad Sci U S A 80(15):4803–4807. https://doi.org/10.1073/pnas.80.15.4803
Gadaleta A, Giancaspro A et al (2008) A transgenic durum wheat line that is free of marker genes and expresses 1Dy10. J Cereal Sci 48(2):439–445
Gaskell G, Stares S et al (2010) Europeans and biotechnology in 2010. Winds of change?
Gaucher M, Righetti L et al (2019) An Erwinia amylovora inducible promoter for intragenic improvement of apple fire blight resistance. bioRxiv. 767772
Graham L (2013) Lonely ideas: can Russia compete? MIT Press
Han X, Ma S et al (2013) Efficient agrobacterium-mediated transformation of hybrid poplar populus davidiana dode x populus bollena Lauche. Int J Mol Sci 14(2):2515–2528. https://doi.org/10.3390/ijms14022515
Haque E, Taniguchi H et al (2018) Application of CRISPR/Cas9 genome editing technology for the improvement of crops cultivated in tropical climates: recent progress, prospects, and challenges. Front Plant Sci 9:617. https://doi.org/10.3389/fpls.2018.00617
Harfouche A, Meilan R et al (2011) Tree genetic engineering and applications to sustainable forestry and biomass production. Trends Biotechnol 29(1):9–17. https://doi.org/10.1016/j.tibtech.2010.09.003
Harlan JR, de Wet JM (1971) Toward a rational classification of cultivated plants. Taxon 509–517
Heller KJ (2007) Genetically engineered food: methods and detection. Wiley
Holme IB, Dionisio G et al (2012) Cisgenic barley with improved phytase activity. Plant Biotechnol J 10(2):237–247. https://doi.org/10.1111/j.1467-7652.2011.00660.x
Holme IB, Wendt T et al (2013) Intragenesis and cisgenesis as alternatives to transgenic crop development. Plant Biotechnol J 11(4):395–407. https://doi.org/10.1111/pbi.12055
Hou H, Atlihan N et al (2014) New biotechnology enhances the application of cisgenesis in plant breeding. Front Plant Sci 5:389. https://doi.org/10.3389/fpls.2014.00389
Hough L, Shay J, et al (1953) Apple scab resistance from Malus-Floribunda Sieb. Paper presented at the proceedings of the American society for horticultural science.
Huang S, Vleeshouwers VG et al (2004) The R3 resistance to Phytophthora infestans in potato is conferred by two closely linked R genes with distinct specificities. Mol Plant Microbe Interact 17(4):428–435. https://doi.org/10.1094/MPMI.2004.17.4.428
Jacobsen E, Schouten HJ (2009) Cisgenesis: an important sub-invention for traditional plant breeding companies. Euphytica 170(1–2):235
Jacobsen E, van der Vossen E et al (2009) Plant disease resistance: breeding and transgenic approaches. Encyclopedia of microbiology. Elsevier, Oxford, pp 597–612
Jo KR, Kim CJ et al (2014) Development of late blight resistant potatoes by cisgene stacking. BMC Biotechnol 14:50. https://doi.org/10.1186/1472-6750-14-50
Jochemsen H (2000) Toetsen en begrenzen: een ethische en politieke beoordeling van de moderne biotechnologie: Wetenschappelijke Instituten van GPV en RPF (ChristenUnie)
Jones HD (2015) Challenging regulations: managing risks in crop biotechnology. Food and Energy Security 4(2):87
Karkute SG, Singh AK et al (2017) CRISPR/Cas9 Mediated genome engineering for improvement of horticultural crops. Front Plant Sci 8:1635. https://doi.org/10.3389/fpls.2017.01635
Khatodia S, Bhatotia K et al (2016) The CRISPR/Cas genome-editing tool: application in improvement of crops. Front Plant Sci 7:506. https://doi.org/10.3389/fpls.2016.00506
Khatodia S, Bhatotia K et al (2017) Development of CRISPR/Cas9 mediated virus resistance in agriculturally important crops. Bioengineered 8(3):274–279. https://doi.org/10.1080/21655979.2017.1297347
Kichey T, Holme I et al (2009) Improving nitrogen use efficiency in barley (Hordeum vulgare L.) through the cisgenic approach
Kleter GA, Kuiper HA et al (2019) Gene-edited crops: towards a harmonized safety assessment. Trends Biotechnol 37(5):443–447. https://doi.org/10.1016/j.tibtech.2018.11.014
Kuhl J, Hanneman R et al (2001) Characterization and mapping of Rpi1, a late-blight resistance locus from diploid (1EBN) Mexican Solanum pinnatisectum. Mol Genet Genomics 265(6):977–985
Lai J, Li Y et al (2005) Gene movement by Helitron transposons contributes to the haplotype variability of maize. Proc Natl Acad Sci USA 102(25):9068–9073. https://doi.org/10.1073/pnas.0502923102
Langner T, Kamoun S et al (2018) CRISPR crops: plant genome editing toward disease resistance. Annu Rev Phytopathol 56:479–512. https://doi.org/10.1146/annurev-phyto-080417-050158
Li R, Quan S et al (2017) Molecular characterization of genetically-modified crops: challenges and strategies. Biotechnol Adv 35(2):302–309. https://doi.org/10.1016/j.biotechadv.2017.01.005
Lin X, Kaul S et al (1999) Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Nature 402(6763):761
Lusser M, Parisi C et al (2012) Deployment of new biotechnologies in plant breeding. Nat Biotechnol 30(3):231–239. https://doi.org/10.1038/nbt.2142
Madlung A, Comai L (2004) The effect of stress on genome regulation and structure. Ann Bot 94(4):481–495
McKnight TD, Lillis MT et al (1987) Segregation of genes transferred to one plant cell from two separate Agrobacterium strains. Plant Mol Biol 8(6):439–445. https://doi.org/10.1007/BF00017989
Melchers G, Sacristán MD et al (1978) Somatic hybrid plants of potato and tomato regenerated from fused protoplasts. Carlsberg Research Commun 43(4):203
Meyer R (1995) Detection of genetically engineered plants by polymerase chain reaction (PCR) using the FLAVR SAVR tomato as an example. Z Lebensm Unters Forsch 201(6):583–586
Michelmore RW (2003) The impact zone: genomics and breeding for durable disease resistance. Curr Opin Plant Biol 6(4):397–404
Naves ER, de Avila Silva L et al (2019) Capsaicinoids: pungency beyond capsicum. Trends Plant Sci 24(2):109–120. https://doi.org/10.1016/j.tplants.2018.11.001
Noeparvar S, Darbani B et al (2016) Targeted expression of HvHMA2 increases the mineral content of the inner endosperm in barley. Plant Biotechnol J
Ortiz R, Jarvis A et al (2014). Plant genetic engineering, climate change and food security
Paal J, Henselewski H et al (2004) Molecular cloning of the potato Gro1-4 gene conferring resistance to pathotype Ro1 of the root cyst nematode Globodera rostochiensis, based on a candidate gene approach. Plant J 38(2):285–297
Park TH, Gros J et al (2005) The late blight resistance locus Rpi-bib3 from Solanum bulbocastanum belongs to a major late blight R gene cluster on chromosome 4 of potato. Mol Plant Microbe Interact 18(7):722–729. https://doi.org/10.1094/MPMI-18-0722
Paul S, Ali N et al (2012) Molecular breeding of Osfer 2 gene to increase iron nutrition in rice grain. GM Crops Food 3(4):310–316. https://doi.org/10.4161/gmcr.22104
Poltronieri P, Reca IB (2015) Genetically modified plants. Cisgenesis. RNA transfer: rootstock to shoot delivery, Mutagenesis and non-GM advanced breeding methods
Powers SJ, Mottram DS, Curtis A, Halford NG (2017) Acrylamide levels in potato crisps in Europe from 2002 to 2016. Food Additives Contaminants: Part A 34(12):2085–2100
Ribeiro C, Hennen-Bierwagen T et al (2020). Engineering 6-phosphogluconate dehydrogenase to improve heat tolerance in maize seed development. bioRxiv
Rommens CM (2004) All-native DNA transformation: a new approach to plant genetic engineering. Trends Plant Sci 9(9):457–464. https://doi.org/10.1016/j.tplants.2004.07.001
Rommens CM (2006) Kanamycin resistance in plants: an unexpected trait controlled by a potentially multifaceted gene. Trends Plant Sci 11(7):317–319. https://doi.org/10.1016/j.tplants.2006.05.002
Rommens CM (2007) Intragenic crop improvement: combining the benefits of traditional breeding and genetic engineering. J Agric Food Chem 55(11):4281–4288. https://doi.org/10.1021/jf0706631
Rommens CM, Haring MA et al (2007) The intragenic approach as a new extension to traditional plant breeding. Trends Plant Sci 12(9):397–403. https://doi.org/10.1016/j.tplants.2007.08.001
Rommens CM, Humara JM et al (2004) Crop improvement through modification of the plant’s own genome. Plant Physiol 135(1):421–431. https://doi.org/10.1104/pp.104.040949
Rommens CM, Kishore GM (2000) Exploiting the full potential of disease-resistance genes for agricultural use. Curr Opin Biotechnol 11(2):120–125
Rommens CM, Ye J et al (2006) Improving potato storage and processing characteristics through all-native DNA transformation. J Agric Food Chem 54(26):9882–9887. https://doi.org/10.1021/jf062477l
Schaart JG, Krens FA et al (2004) Effective production of marker-free transgenic strawberry plants using inducible site-specific recombination and a bifunctional selectable marker gene. Plant Biotechnol J 2(3):233–240. https://doi.org/10.1111/j.1467-7652.2004.00067.x
Schaart JG, van de Wiel CCM et al (2016) Opportunities for products of new plant breeding techniques. Trends Plant Sci 21(5):438–449. https://doi.org/10.1016/j.tplants.2015.11.006
Scheben A, Wolter F et al (2017) Towards CRISPR/Cas crops—bringing together genomics and genome editing. New Phytol 216(3):682–698. https://doi.org/10.1111/nph.14702
Schlathölter I, Broggini GA et al (2019) Multi-level assessment of field-grown cisgenic apple trees. Paper presented at the XV EUCARPIA symposium on fruit breeding and genetics
Schmidt, H., & Van de Weg, W. (2005). Breeding. In Fundamentals of temperate zone tree fruit production (pp. 136–155): Backhuys Publishers.
Schouten HJ, Krens FA et al (2006) Cisgenic plants are similar to traditionally bred plants: international regulations for genetically modified organisms should be altered to exempt cisgenesis. EMBO Rep 7(8):750–753. https://doi.org/10.1038/sj.embor.7400769
Sharma (2008) Biotechnological approaches for pest management and ecological sustainability. CRC Press
Sharma HC, Pampapathy G, Lanka SK, Ridsdill-Smith TJ (2005) Exploitation of wild cicer reticulatum germplasm for resistance to Helicoverpa armigera. J Econ Entomol 98(6):2246–2253. https://doi.org/10.1093/jee/98.6.2246
Sharma KK, Sreelatha G, Dayal S (2006) Pigeonpea (Cajanus cajan L. Millsp.). Methods Mol Biol 343:359–367. https://doi.org/10.1385/1-59745-130-4:359
Shew AM, Nalley LL et al (2016) Are all GMOs the same? Consumer acceptance of cisgenic rice in India. Plant Biotechnol J 14(1):4–7. https://doi.org/10.1111/pbi.12442
Shirley BW, Hanley S et al (1992) Effects of ionizing radiation on a plant genome: analysis of two Arabidopsis transparent testa mutations. Plant Cell 4(3):333–347
Singh A, Chakraborty D et al (2016) CRISPR/Cas9: a historical and chemical biology perspective of targeted genome engineering. Chem Soc Rev 45(24):6666–6684. https://doi.org/10.1039/c6cs00197a
Singh RJ, Chung GH et al (2007) Landmark research in legumes. Genome 50(6):525–537. https://doi.org/10.1139/g07-037
Sink KC, Jain RK, Chowdhury JB (1992) Somatic cell hybridization. In: Distant hybridization of crop plants. Springer, Berlin, Heidelberg pp 168–198
Sticklen M (2015) Transgenic, cisgenic, intragenic and subgenic crops. Adv Crop Sci Tech 3(2):e123
Tamang T, Park J, Kakeshpour T, Valent B, Jia Y, Want G, Park S (2018) Development of selectable marker-free cisgenic rice plants expressing a blast resistance gene Pi9. World Con-Gress Vitro Biology 54:544
van der Vossen E, Sikkema A et al (2003) An ancient R gene from the wild potato species Solanum bulbocastanum confers broad-spectrum resistance to Phytophthora infestans in cultivated potato and tomato. Plant J 36(6):867–882
Vanblaere T, Flachowsky H et al (2014) Molecular characterization of cisgenic lines of apple ‘Gala’ carrying the Rvi6 scab resistance gene. Plant Biotechnol J 12(1):2–9. https://doi.org/10.1111/pbi.12110
Vanblaere T, Szankowski I et al (2011) The development of a cisgenic apple plant. J Biotechnol 154(4):304–311. https://doi.org/10.1016/j.jbiotec.2011.05.013
Varshney RK, Song C et al (2013) Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement. Nat Biotechnol 31(3):240–246. https://doi.org/10.1038/nbt.2491
Vasantrao JM, Baruah IK et al (2019) Transcript profiling of chickpea pod wall revealed the expression of floral homeotic gene AGAMOUS-like X2 (CaAGLX2). Mol Biol Rep. https://doi.org/10.1007/s11033-019-05005-0
Vossen JH, van Arkel G et al (2016) The Solanum demissum R8 late blight resistance gene is an Sw-5 homologue that has been deployed worldwide in late blight resistant varieties. Theor Appl Genet 129(9):1785–1796. https://doi.org/10.1007/s00122-016-2740-0
Waltz E (2015) Nonbrowning gm apple cleared for market. Nat Biotechnol 33(4):326+
Wang Y, Cheng X et al (2014) Simultaneous editing of three homoeoalleles in hexaploid bread wheat confers heritable resistance to powdery mildew. Nat Biotechnol 32(9):947–951. https://doi.org/10.1038/nbt.2969
Weeks JT, Ye J et al (2008) Development of an in planta method for transformation of alfalfa (Medicago sativa). Transgenic Res 17(4):587–597. https://doi.org/10.1007/s11248-007-9132-9
Williams E, Kuc J (1969) Resistance in Malus to Venturia inaequalis. Annu Rev Phytopathol 7(1):223–246
Xue T, Li X et al (2009) Cotton metallothionein GhMT3a, a reactive oxygen species scavenger, increased tolerance against abiotic stress in transgenic tobacco and yeast. J Exp Bot 60(1):339–349. https://doi.org/10.1093/jxb/ern291
Zaidi SS, Vanderschuren H et al (2019) New plant breeding technologies for food security. Science 363(6434):1390–1391. https://doi.org/10.1126/science.aav6316
Zhu S, Li Y et al (2012) Functional stacking of three resistance genes against Phytophthora infestans in potato. Transgenic Res 21(1):89–99. https://doi.org/10.1007/s11248-011-9510-1
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Sarmah, B.K., Gohain, M., Borah, B.K., Acharjee, S. (2021). Cisgenesis: Engineering Plant Genome by Harnessing Compatible Gene Pools. In: Sarmah, B.K., Borah, B.K. (eds) Genome Engineering for Crop Improvement. Concepts and Strategies in Plant Sciences. Springer, Cham. https://doi.org/10.1007/978-3-030-63372-1_8
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