Characterisation of 3′ transgene insertion site and derived mRNAs in MON810 YieldGard® maize

Plant Molecular Biology

Volumn 67, Issue 3, 2008, Pages 271-281

  Rosati, Alessio ^a   Bogani, Patrizia ^a   Santarlasci, Alisa ^a   Buiatti, Marcello ^a  

^a UNIVERSITY OF FLORENCE   (Italy)

Author keywords

3 insertion site; Cry hect recombinant mRNAs; HECT protein ligase; YieldGard MON810 maize

Indexed keywords

LEPIDOPTERA; ZEA MAYS;

MESSENGER RNA; PLANT DNA; PLANT RNA; PRIMER DNA;

AMINO ACID SEQUENCE; ARTICLE; BASE PAIRING; GENETICS; ISOLATION AND PURIFICATION; MAIZE; METHODOLOGY; MOLECULAR GENETICS; POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY; TRANSGENIC PLANT; TRANSPOSON;

AMINO ACID SEQUENCE; BASE PAIRING; DNA PRIMERS; DNA TRANSPOSABLE ELEMENTS; DNA, PLANT; MOLECULAR SEQUENCE DATA; PLANTS, GENETICALLY MODIFIED; POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, MESSENGER; RNA, PLANT; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID; SEQUENCE HOMOLOGY, NUCLEIC ACID; ZEA MAYS;

EID: 42649119421     PISSN: 01674412     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11103-008-9315-7     Document Type: Article

References (51)

1. Alonso JM, Stepanova AN, Leisse TJ, Kim CJ, Chen H, Shinn P, Stevenson DK, Zimmerman J, Barajas P, Cheuk R, Gadrinab C, Heller C, Jeske A, Koesema E, Meyers CC, Parker H, Prednis L, Ansari Y, Choy N, Deen H, Geralt M, Hazari N, Hom E, Karnes M, Mulholland C, Ndubaku R, Schmidt I, Guzman P, Aguilar-Henonin L, Schmid M, Weigel D, Carter DE, Marchand T, Risseeuw E, Brogden D, Zeko A, Crosby WL, Berry CC, Ecker JR (2003) Genome-wide insertional mutagenesis of Arabidopsis thaliana. Science 301(5633):653-657
2. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403-410
3. Bogani P, Simoni A, Bettini P, Mugnai M, Pellegrini MG, Buiatti M (1995) Genome flux in tomato auto- and auxotrophic cell clones cultured in different auxin/cytokinin equilibria. I. DNA multiplicity and methylation levels. Genome 38:902-912
4. Breitler JC, Labeyrie A, Meynard D, Legavre T, Guiderdoni E (2002) Efficient microprojectile bombardment-mediated transformation of rice using gene cassettes. Theor Appl Genet 104:709-719
5. Brunner S, Pea G, Rafalski A (2005) Origins, genetic organization and transcription of a family of non-autonomous helitron elements in maize. Plant J 43(6):799-810
6. Chen S, Jin W, Wang M, Zhang F, Zhou J, Jia Q, Wu Y, Liu F, Wu P (2003) Distribution and characterisation of over 1000 T-DNA tags in rice genome. Plant J 36:105-113
7. Downes BP, Stupar RM, Gingerich DJ, Vierstra RD (2003) The HECT ubiquitin-protein ligase (UPL) family in Arabidopsis: UPL3 has a specific role in trichome development. Plant J 35:729-742
8. Dunning Hotopp JC, Clark ME, Oliveira DCS, Foster JM, Fischer P, Muñoz Torres MC, Giebel JD, Kumar N, Ishmael N, Wang S, Ingram J, Nene RV, Shepard J, Tomkins J, Richards S, Spiro DJ, Ghedin E, Slatko BE, Tettelin H, Werren JH (2007) Widespread lateral gene transfer from intracellular bacteria to multicellular eukaryotes. Science 317:1753-1756
9. Fitch MM, Manshardt RM, Gonsalves D, Slightom JL, Sanford JC (1992) Virus resistant papaya plants derived from tissues bombarded with the coat protein gene of papaya ringspot virus. Biotechnology 10:1466-1472
10. Forsbach A, Schubert D, Lechtenberg B, Gils M, Schmidt R (2003) A comprehensive characterisation of single-copy T-DNA insertions into the Arabidopsis thaliana genome. Plant Mol Biol 52:161-176
11. Fu X, Duc LT, Fontana S, Bong BB, Tinjuangjun P, Sudhakar D, Twyman RM, Christou P, Kohli A (2000) Linear transgene constructs lacking vector backbone sequences generate low-copy-number transgenic plants with simple integration patterns. Transgenic Res 9:11-19
12. Hellmann H, Estelle M (2002) Plant development: regulation by protein degradation. Science 297:793-797
13. Hernandez M, Pla M, Esteve T, Prat S, Puigdomenech P, Ferrando A (2003) A specific real-time quantitative PCR detection system for event MON810 in maize YieldGard® based on the 3′-transgene integration sequence. Transgenic Res 12:179-189
14. Holck A, Va M, Didierjean L, Rudi K (2002) 5′-nuclease PCR for quantitative event-specific detection of the genetically modified Mon810 MaisGard maize. Eur Food Res Technol 214:449-453
15. Hulo N, Bairoch A, Bulliard V, Cerutti L, De Castro E, Langendijk-Genevaux PS, Pagni M, Sigrist CJA (2006) The PROSITE database. Nucleic Acids Res 34:D227-D230
16. Jeong DH, An S, Kang HG, Moon S, Han JJ, Park S, Lee HS, An K, An G (2002) T-DNA insertional mutagenesis for activation tagging in rice. Plant Physiol 130(4):1636-1644
17. Jeong DH, An S, Kang HG, Park GG, Kim SR, Sim J, Kim YO, Kim MK, Kim SR, Kim J, Shin M, Jung M, An G (2006) Generation of a flanking sequence-tag database for activation-tagging lines in Japonica rice. Plant J 45(1):123-132
18. Kohli A, Griffiths S, Palacios N, Twyman RM, Vain P, Laurie DA, Christou P (1999) Molecular characterisation of transforming plasmid rearrangements in transgenic rice reveals a recombination hotspot in the CaMV 35S promoter and confirms the predominance of microhomology mediated recombination. Plant J 17(6):591-601
19. Kohli A, Twyman RM, Abranches R, Wegel E, Stoger E, Christou P (2003) Transgene integration, organization and interaction in plants. Plant Mol Biol 52:247-258
20. Koncz C, Martini N, Mayerhofer R, Koncz-Kalman Z, Korber H, Redei GP, Schell J (1989) High-frequency T-DNA-mediated gene tagging in plants. PNAS USA 86(21):8467-8471
21. Korf I, Flicek P, Duan D, Brent MR (2001) Integrating genomic homology into gene structure prediction. Bioinformatics 17(90001):S140-S148
22. Letunic I, Copley RR, Pils B, Pinkert S, Schultz J, Bork P (2006) SMART 5: domains in the context of genomes and networks. Nucleic Acids Res 34:D257-D260. doi: 10.1093/nar/gkj079
23. Lindsey K, Wei W, Clarke MC, Mcardle HF, Rooke LM, Topping JF (1993) Tagging genomic sequences that direct transgene expression by activation of a promoter trap in plants. Transgenic Res 2(1):33-47
24. Loc TN, Tinjuangjun P, Gatehouse AMR, Christou P, Gatehouse JA (2002) Linear transgene constructs lacking vector backbone sequences generate transgenic rice plants which accumulate higher levels of proteins conferring insect resistance. Mol Breed 9:231-244
25. Maqbool SB, Christou P (1999) Multiple traits of agronomic importance in indica rice plants: analysis of transgene integration patterns, expression levels and stability. Mol Breed 5:471-480
26. Mehlo L, Mazithulela G, Twyman RM, Boulton MI, Davies JW, Christou P (2000) Structural analysis of transgene rearrangements and effects on expression in transgenic maize plants generated by particle bombardment. Maydica 45:277-287
27. Morgante M, Brunner S, Pea G, Fengler K, Zuccolo A, Rafalski A (2005) Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize. Nat Genet 37:997-1002
28. Pawlowski WP, Somers DA (1996) Transgene inheritance in plants genetically engineered by microprojectile bombardment. Mol Biotechnol 6(1):17-30
29. Pawlowski WP, Somers DA (1998) Transgenic DNA integrated into the oat genome is frequently interspersed by host DNA. PNAS USA 95(21):12106-12110
30. Qin G, Kang D, Dong Y, Shen Y, Zhang L, Deng X, Zhang Y, Li S, Chen N, Niu W, Chen C, Liu P, Chen H, Li J, Ren Y, Gu H, Deng X, Qu LJ, Chen Z (2003) Obtaining and analysis of flanking sequences from T-DNA transformants of Arabidopsis. Plant Sci 165:941-949
31. Rang A, Linke B, Jansen B (2005) Detection of RNA variants transcribed from the transgene in Roundup Ready soybean. Eur Food Res Technol 220:438-443
32. Rice P, Longden I, Bleasby A (2000) EMBOSS: the European molecular biology open software suite. Trends Genet 16(6):276-277
33. Rozen S, Skaletsky HJ (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols: methods in molecular biology. Humana Press, Totowa, pp 365-386
34. Salvo-Garrido H, Travella S, Bilham LJ, Harwood WA, Snape JW (2004) The distribution of transgene insertion sites in barley determined by physical and genetic mapping. Genetics 167(3):1371-1379
35. Scholte M, D'erfurth I, Rippa S, Mondy S, Cosson V, Durand P, Breda C, Trinh H, Rodriguez-Lorente I, Kondorosi E, Schultze M, Kondorosi A, Ratet P (2002) T-DNA tagging in the model legume Medicago truncatula allows efficient gene discovery. Mol Breed 10:203-215
36. Schultz J, Milpetz F, Bork P, Ponting CP (1998) SMART, a simple modular architecture research tool: identification of signaling domains. PNAS 95(11):5857-5864
37. Sha Y, Li S, Pei Z, Luo L, Tian Y, He C (2004) Generation and flanking sequence analysis of a rice T-DNA tagged population. Theor Appl Genet 108(2):306-314
38. Siebert PD, Chenchik A, Kellogg DE, Lukyanov KA, Lukyanov SA (1995) An improved method for walking in uncloned genomic DNA. Nucleic Acids Res 23:1087-1088
39. Somers DA, Makarevitch I (2004) Transgene integration in plants: poking or patching holes in promiscuous genomes? Curr Opin Biotechnol 15(2):126-131
40. Svitashev SK, Somers DA (2001) Genomic interspersions determine the size and complexity of transgene loci in transgenic plants produced by microprojectile bombardment. Genome 44:691-697
41. Svitashev SK, Somers DA (2002) Characterization of transgene loci in plants using FISH: a picture is worth a thousand words. Plant Cell Tissue Organ Cult 69:205-214
42. Svitashev SK, Ananiev E, Pawlowski WP, Somers DA (2000) Association of transgene integration sites with chromosome rearrangements in hexaploid oat. Theor Appl Genet 100:872-880
43. Szabados L, Kovacs I, Obershall A, Abrahám E, Kerekes I, Zsigmond L, Nagy R, Alvarado M, Krasovskaja I, Gál M, Berente A, Rédei GP, Haim AB, Koncz C (2002) Distribution of 1000 sequenced T-DNA tags in the Arabidopsis genome. Plant J 32:233-242
44. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22(22):4673-4680
45. Tinland B (1996) The integration of T-DNA into plant genomes. Trends Plant Sci 1(6):178-184
46. Tzfira T, Li J, Lacroix B, Citovsky V (2004). Agrobacterium T-DNA integration: molecules and models. Trends Genet 20(8):375-383
47. Vain P, James VA, Worland B, Snape JW (2002) Transgene behaviour across two generations in a large random population of transgenic rice plants produced by particle bombardment. Theor Appl Genet 105:878-889
48. Vierstra RD (2003) The ubiquitin/26S proteasome pathway, the complex last chapter in the life of many plant proteins. Trends Plant Sci 8:135-142
49. Wilson A, Latham J, Steinbrecher R (2006) Transformation-induced mutations in transgenic plants: analysis and biosafety implications. Biotechnol Genet Eng Rev 23:209-234
50. Windels P, Taverniers I, Depicker A, Van Bockstaele E, De Loose M (2001) Characterisation of the roundup ready soybean insert. Eur Food Res Technol 213:107-111
51. Zhang J, Guo D, Chang Y, You C, Li X, Dai X, Weng Q, Zhang J, Chen G, Li X, Liu H, Han B, Zhang Q, Wu C (2007) Non-random distribution of T-DNA insertions at various levels of the genome hierarchy as revealed by analyzing 13 804 T-DNA flanking sequences from an enhancer-trap mutant library. Plant J 49(5):947-959