Zeevi V, Liang Z, Arieli U, Tzfira T. Zinc finger nuclease and homing endonuclease-mediated assembly of multigene plant transformation vectors. Plant Physiol. 2012;158:132–44.
Article
CAS
Google Scholar
Peremarti A, Twyman RM, Gómez-Galera S, Naqvi S, Farré G, Sabalza M, Miralpeix B, Dashevskaya S, Yuan D, Ramessar K, Christou P, Zhu C, Bassie L, Capell T. Promoter diversity in multigene transformation. Plant Mol Biol. 2010;73:363–78.
Article
CAS
Google Scholar
Christensen AH, Quail PH. Ubiquitin promoter-based vectors for high-level expression of selectable and/or screenable marker genes in monocotyledonous plants. Transgenic Res. 1996;5:213–8.
Article
CAS
Google Scholar
Wei H, Wang ML, Moore PH, Albert HH. Comparative expression analysis of two sugarcane polyubiquitin promoters and flanking sequences in transgenic plants. J Plant Physiol. 2003;160:1241–51.
Article
CAS
Google Scholar
Liu AW, Oard SV, Oard JH. High transgene expression levels in sugarcane (Saccharum officinarum L.) driven by the rice ubiquitin promoter RUBQ2. Plant Sci. 2003;165:743–50.
Article
CAS
Google Scholar
Philip A, Syamaladevi DP, Chakravarthi M, Gopinath K, Subramonian N. 5′ regulatory region of ubiquitin 2 gene from Porteresia coarctata makes efficient promoters for transgene expression in monocots and dicots. Plant Cell Rep. 2013;32:1199–210.
Article
CAS
Google Scholar
Chakravarthi M, Philip A, Subramonian N. Truncated ubiquitin 5′ regulatory region from Erianthus arundinaceus drives enhanced transgene expression in heterologous systems. Mol Biotechnol. 2015;57:820–35.
Article
CAS
Google Scholar
Morais LK, Aguiar MS, Silva PAE, Camara TMM, Cursi DE, Fernande AR Jr, Chapola RG, Carneiro MS, Bespalhok Filho JC. Breeding of sugarcane. In: Cruz VMV, Dierig DA, editors. Industrial crops, handbook of plant breeding 9. New York: Springer; 2015. p. 29–42.
Google Scholar
Damaj MB, Kumpatla SP, Emani C, Beremand PD, Reddy AS, Rathore KS, Buenrostro-Nava MT, Curtis IS, Thomas TL, Mirkov TE. Sugarcane DIRIGENT and O-methyltransferase promoters confer stem-regulated gene expression in diverse monocots. Planta. 2010;231:1439–58.
Article
CAS
Google Scholar
Harrison MD, Geijskes J, Coleman HD, Shand K, Kinkema M, Palupe A, Hassall R, Sainz M, Lloyd R, Miles S, Dale JL. Accumulation of recombinant cellobiohydrolase and endoglucanase in the leaves of mature transgenic sugar cane. Plant Biotechnol J. 2011;9:884–96.
Article
CAS
Google Scholar
Kinkema M, Miles S. Compositions and methods for increased expression in sugar cane. Patent application WO/2013/090137. 2013.
Moyle RL, Birch RG. Sugarcane loading stem gene promoters drive transgene expression preferentially in the stem. Plant Mol Biol. 2013;82:51–8.
Article
CAS
Google Scholar
Kay R, Chan A, Daly M, McPherson J. Duplication of CaMV 35S promoter sequences creates a strong enhancer for plant genes. Science. 1987;236:1299–302.
Article
CAS
Google Scholar
Bhattacharyya-Pakrasi M, Peng J, Elmer JS, Laco G, Shen P, Kaniewska MB, Kononowicz H, Wen F, Hodges TK, Beachy RN. Specificity of a promoter from the Rice tungro bacilliform virus for expression in phloem tissues. Plant J. 1993;4:71–9.
Article
CAS
Google Scholar
Chen G, Rothnie HM, He X, Hohn T, Fütterer J. Efficient transcription from the Rice tungro bacilliform virus promoter requires elements downstream of the transcription start site. J Virol. 1996;70:8411–21.
CAS
Google Scholar
Medberry SL, Lockhart BEL, Olszewski NE. The Commelina yellow mottle virus promoter is a strong promoter in vascular and reproductive tissue. Plant Cell. 1992;4:185–92.
Article
CAS
Google Scholar
Yang IC, Iommarini JP, Becker DK, Hafner GJ, Dale JL, Harding RM. A promoter derived from taro bacilliform badnavirus derives strong expression in transgenic banana and tobacco plants. Plant Cell Rep. 2003;21:1199–206.
Article
CAS
Google Scholar
Schenk PM, Remans T, Sági L, Elliott AR, Dietzgen RG, Swennen R, Ebert PR, Grof CP, Manners JM. Promoters for pregenomic RNA of Banana streak badnavirus are active for transgene expression in monocot and dicot plants. Plant Mol Biol. 2001;47:399–412.
Article
CAS
Google Scholar
Tzafrir I, Torbert KA, Lockhart BEL, Somers DA, Olszewski NE. The sugarcane bacilliform badnavirus promoter is active in both monocots and dicots. Plant Mol Biol. 1998;38:347–56.
Article
CAS
Google Scholar
Schenk PM, Sagi L, Remans T, Dietzgen RG, Bernard MJ, Graham MW, Manners JM. A promoter from sugarcane bacilliform badnavirus drives transgene expression in banana and other monocot and dicot plants. Plant Mol Biol. 1999;39:1221–30.
Article
CAS
Google Scholar
Bouhida M, Lockhart BEL, Olszewski NE. An analysis of the complete sequence of a Sugarcane bacilliform virus genome infectious to banana and rice. J Gen Virol. 1993;74:15–22.
Article
CAS
Google Scholar
Geijskes RJ, Braithwaite KS, Dale JL, Harding RM, Smith GR. Sequence analysis of an Australian isolate of sugarcane bacilliform badnavirus. Arch Virol. 2002;147:2393–404.
Article
CAS
Google Scholar
Muller E, Dupuy V, Blondin L, Bauffe F, Daugrois JH, Nathalie L, Iskra-Caruana ML. High molecular variability of Sugarcane bacilliform viruses in Guadeloupe implying the existence of at least three new species. Virus Res. 2011;160:414–9.
Article
CAS
Google Scholar
Karuppaiah R, Viswanathan R, Kumar VG. Genetic diversity of Sugarcane bacilliform virus isolates infecting Saccharum spp. in India. Virus Genes. 2013;46:505–16.
Article
CAS
Google Scholar
Sun S-R, Damaj MB, Alabi OJ, Wu X-B, Mirkov TE, Fu H-Y, Chen R-K, Gao S-J. Molecular characterization of two divergent variants of sugarcane bacilliform viruses infecting sugarcane in China. Eur J Plant Pathol. 2016;145:375–84.
Article
CAS
Google Scholar
Adams MJ, Carstens EB. Ratification vote on taxonomic proposals to the International Committee on Taxonomy of Viruses. Arch Virol. 2012;157:1411–22.
Article
CAS
Google Scholar
Geering ADW, Hull R. Family Caulimoviridae. In: King AMQ, Adams MJ, Carestens EB, Lefkowitz EJ, editors. Virus taxonomy classification and nomenclature of viruses ninth report of the international committee on taxonomy of viruses. San Diego: Elsevier; 2012. p. 424–43.
Google Scholar
Rao GP, Sharma SK, Singh D, Arya M, Singh P, Baranwal VK. Genetically diverse variants of Sugarcane bacilliform virus infecting sugarcane in India and evidence of a novel recombinant badnavirus variant. J Phytopathol. 2014;162:779–87.
Article
CAS
Google Scholar
Wu X-B, Alabi OJ, Damaj MB, Sun S-R, Mirkov TE, Fu H-Y, Chen R-K, Gao S-J. Prevalence and RT/RNase H genealogy of Sugarcane bacilliform virus isolates from China. J Phytopathol. 2016;164:595–607.
Article
CAS
Google Scholar
Al-Saady NA, Torbert KA, Smith L, Makarevitch I, Baldridge G, Zeyen RJ, Muehlbauer GJ, Olszewski NE, Somers DA. Tissue specificity of the Sugarcane bacilliform virus promoter in oat, barley and wheat. Mol Breed. 2004;14:331–8.
Article
Google Scholar
Ingelbrecht IL, Irvine JE, Mirkov TE. Posttranscriptional gene silencing in transgenic sugarcane. Dissection of homology-dependent virus resistance in a monocot that has a complex polyploid genome. Plant Physiol. 1999;119:1187–98.
Article
CAS
Google Scholar
Mudge SR, Osabe K, Casu RE, Bonnett GD, Manners JM, Birch RG. Efficient silencing of reporter transgenes coupled to known functional promoters in sugarcane, a highly polyploid crop species. Planta. 2009;229:549–58.
Article
CAS
Google Scholar
Birch RG, Shen B, Sawyer BJ, Huttner E, Tucker WQ, Betzner AS. Evaluation and application of a luciferase fusion system for rapid in vivo analysis of RNAi targets and constructs in plants. Plant Biotechnol J. 2010;8:465–75.
Article
CAS
Google Scholar
Gao SJ, Damaj MB, Park JW, Beyene G, Buenrostro-Nava MT, Molina J, Wang X, Ciomperlik JJ, Manabayeva SA, Alvarado VY, Rathore KS, Scholthof HB, Mirkov TE. Enhanced transgene expression in sugarcane by co-expression of virus-encoded RNA silencing suppressors. PLoS ONE. 2013;8:e66046.
Article
CAS
Google Scholar
Reese MG. Application of a time-delay neural network to promoter annotation in the Drosophila melanogaster genome. Comput Chem. 2001;26:51–6.
Article
CAS
Google Scholar
Lescot M, Déhais P, Thijs G, Marchal K, Moreau Y, Van de Peer Y, Rouzé P, Rombauts S. PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. Nucleic Acids Res. 2002;30:325–7.
Article
CAS
Google Scholar
Higo K, Ugawa Y, Iwamoto M, Korenaga T. Plant cis-acting regulatory DNA elements (PLACE) database. Nucleic Acids Res. 1999;27:297–300.
Article
CAS
Google Scholar
Jin JP, Tian F, Yang DC, Meng YQ, Kong L, Luo JC, Gao G. PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants. Nucleic Acids Res. 2017;45(D1):D1040–5.
Article
Google Scholar
Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol. 2013;30:2725–9.
Article
CAS
Google Scholar
Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser. 1999;41:95–8.
CAS
Google Scholar
Beyene G, Buenrostro-Nava MT, Damaj MB, Gao S-J, Molina J, Mirkov TE. Unprecedented enhancement of transient gene expression from minimal cassettes using a double terminator. Plant Cell Rep. 2011;30:13–25.
Article
CAS
Google Scholar
Murashige T, Skoog F. A revised medium for rapid growth and bioassays with tobacco tissue cultures. Physiol Plant. 1962;15:473–97.
Article
CAS
Google Scholar
Snyman SJ, Meyer GM, Richards JM, Haricharan N, Ramgareeb S, Huckett BI. Refining the application of direct embryogenesis in sugarcane: effect of the developmental phase of leaf disc explants and the timing of DNA transfer on transformation efficiency. Plant Cell Rep. 2006;25:1016–23.
Article
CAS
Google Scholar
Chiera JM, Bouchard RA, Dorsey SL, Park EH, Buenrostro-Nava MT, Ling PP, Finer JJ. Isolation of two highly active soybean (Glycine max (L.) Merr.) promoters and their characterization using a new automated image collection and analysis system. Plant Cell Rep. 2007;26:501–1509.
Article
Google Scholar
Tai TH, Tanksley SD. A rapid and inexpensive method for isolation of total DNA from dehydrated plant tissue. Plant Mol Biol Rep. 1990;8:297–303.
Article
Google Scholar
Sambrook J, Russell DW. Molecular cloning: a laboratory manual. New York: Cold Spring Harbor Laboratory Press; 2001. p. 2344.
Sambrook J, Fritsch E, Maniatis T. Molecular cloning: a laboratory manual. New York: Cold Spring Harbor Laboratory Press; 1989.
Google Scholar
Mangwende T, Wang ML, Borth W, Hu J, Moore PH, Mirkov TE, Albert HH. The P0 gene of Sugarcane yellow leaf virus encodes an RNA silencing suppressor with unique activities. Virology. 2009;384:38–50.
Article
CAS
Google Scholar
Jefferson RA, Kavanagh TA, Bevan MW. GUS fusions: β-glucuronidase as a sensitive and versatile gene fusion marker in higher plants. EMBO J. 1987;6:3901–7.
CAS
Google Scholar
Ow DW, Jacobs JD, Howell SH. Functional regions of the cauliflower mosaic virus 35S RNA promoter determined by use of the firefly luciferase gene as a reporter of promoter activity. Proc Natl Acad Sci USA. 1987;84:4870–4.
Article
CAS
Google Scholar
Porto MS, Pinheiro MP, Batista VG, dos Santos RC, de Albuquerque Melo Filho P, de Lima LM. Plant promoters: an approach of structure and function. Mol Biotechnol. 2014;56:38–49.
Article
CAS
Google Scholar
Yin Y, Chen L, Beachy R. Promoter elements required for phloem-specific gene expression of the RTBV promoter in rice. Plant J. 1997;12:1179–88.
Article
CAS
Google Scholar
Saha P, Chakraborti D, Sarkar A, Dutta I, Basu D, Das S. Characterization of vascular-specific RSs1 and rolC promoters for their utilization in engineering plants to develop resistance against hemipteran insect pests. Planta. 2007;226:429–42.
Article
CAS
Google Scholar
Prigge MJ, Clark SE. Evolution of the class III HD-Zip gene family in land plants. Evol Dev. 2006;8:350–61.
Article
CAS
Google Scholar
Alexandrov NN, Brover VV, Freidin S, Troukhan ME, Tatarinova TV, Zhang H, Swaller TJ, Lu YP, Bouck J, Flavell RB, Feldmann KA. Insights into corn genes derived from large-scale cDNA sequencing. Plant Mol Biol. 2009;69:179–94.
Article
CAS
Google Scholar
Samac DA, Tesfaye M, Dornbusch M, Saruul P, Temple SJ. A comparison of constitutive promoters for expression of transgenes in alfalfa (Medicago sativa). Transgenic Res. 2004;13:349–61.
Article
CAS
Google Scholar
Braithwaite KS, Geijskes RJ, Smith GR. A variable region of the Sugarcane bacilliform virus (SCBV) genome can be used to generate promoters for transgene expression in sugarcane. Plant Cell Rep. 2004;23:319–26.
Article
CAS
Google Scholar
Mirkov ET, Park JW, Gao SJ. Compositions, organisms, systems, and methods for expressing a gene product in plants using SCBV expression control sequences operable in monocots and dicots. United States Patent 8710207. 2014.
Al-Saady NA, Gopalraj M, Olszewski NE, Somers DA. Deletion analysis of the Sugarcane bacilliform virus promoter activity in monocot and dicot plants. Biotechnology. 2010;9:283–93.
Article
CAS
Google Scholar
Davies JP, Reddy V, Liu XL, Reddy AS, Ainley WM, Thompson M, Sastry-Dent L, Cao Z, Connell J, Gonzalez DO, Wagner DR. Identification and use of the Sugarcane bacilliform virus enhancer in transgenic maize. BMC Plant Biol. 2014;14:359.
Article
Google Scholar
Tornero P, Conejero V, Vera P. Phloem-specific expression of a plant homeobox gene during secondary phases of vascular development. Plant J. 1996;9:639–48.
Article
CAS
Google Scholar
Sachdeva M, Bhatia S, Batta SK. Sucrose accumulation in sugarcane: a potential target for crop improvement. Acta Physiol Plant. 2011;33:1571–83.
Article
CAS
Google Scholar
Bull TA, Glasziou KT. The evolutionary significance of sugar accumulation in Saccharum. Aust J Biol Sci. 1963;16:737–42.
Article
CAS
Google Scholar
Casu RE, Rae AL, Nielsen JM, Perroux JM, Bonnett GD, Manners JM. Tissue-specific transcriptome analysis within the maturing sugarcane stalk reveals spatial regulation in the expression of cellulose synthase and sucrose transporter gene families. Plant Mol Biol. 2015;89:607–28.
Article
CAS
Google Scholar
Graham MW, Craig S, Waterhouse PM. Expression patterns of vascular-specific promoters RolC and Sh in transgenic potatoes and their use in engineering PLRV-resistant plants. Plant Mol Biol. 1997;33:729–35.
Article
CAS
Google Scholar
Arencibia A, Vázquez RI, Prieto D, Téllez P, Carmona ER, Coego A, Hernández L, de la Riva GA, Selman-Housein G. Transgenic sugarcane plants resistant to stem borer attack. Mol Breed. 1997;3:247–55.
Article
Google Scholar
Barros GOF, Ballen MAT, Woodard SL, Wilken LR, White SG, Damaj MB, Mirkov TE, Nikolov ZL. Recovery of bovine lysozyme from transgenic sugarcane stalks: extraction, membrane filtration, and purification. Bioprocess Biosyst Eng. 2013;36:1407–16.
Article
CAS
Google Scholar