Akazawa T, Hara-Nishimura I (1985) Topographic aspects of biosynthesis, extracellular secretion, and intracellular storage of proteins in plant cells. Annu Rev Plant Physiol 36(1):441–472

CAS  Google Scholar 

Allen F, Crepaldi L, Alsinet C, Strong AJ, Kleshchevnikov V, De Angeli P, Páleníková P, Khodak A, Kiselev V, Kosicki M (2019) Predicting the mutations generated by repair of Cas9-induced double-strand breaks. Nat Biotechnol 37(1):64–72

CAS  Google Scholar 

Antonopoulos A, Broome S, Sharov V, Ziegenfuss C, Easton RL, Panico M, Dell A, Morris HR, Haslam SM (2021) Site-specific characterization of SARS-CoV-2 spike glycoprotein receptor-binding domain. Glycobiology 31(3):181–187

CAS  PubMed  Google Scholar 

Arias-Arias JL, Molina-Castro SE, Monturiol-Gross L, Lomonte B, Corrales-Aguilar E (2023) Stable production of recombinant SARS-CoV-2 receptor-binding domain in mammalian cells with co-expression of a fluorescent reporter and its validation as antigenic target for COVID-19 serology testing. Biotechnology Reports 37:e00780

CAS  PubMed  Google Scholar 

Back G, Walther D (2021) Identification of cis-regulatory motifs in first introns and the prediction of intron-mediated enhancement of gene expression in Arabidopsis thaliana. BMC Genomics 22(1):390

CAS  PubMed  PubMed Central  Google Scholar 

Bastami M, Hosseini R (2024) The codon optimised gene produces an active human basic fibroblastic growth factor in rice cell suspension culture. Growth Factors 42(4):171–187

CAS  PubMed  Google Scholar 

Beck E, Ziegler P (1989) Biosynthesis and degradation of starch in higher plants. Annu Rev Plant Biol 40(1):95–117

CAS  Google Scholar 

Berndt AJ, Smalley TN, Ren B, Simkovsky R, Badary A, Sproles AE, Fields FJ, Torres-Tiji Y, Heredia V, Mayfield SP (2021) Recombinant production of a functional SARS-CoV-2 spike receptor binding domain in the green algae Chlamydomonas reinhardtii. PLoS ONE 16(11):e0257089

CAS  PubMed  PubMed Central  Google Scholar 

Callis J, Fromm M, Walbot V (1987) Introns increase gene expression in cultured maize cells. Genes Dev 1(10):1183–1200

CAS  PubMed  Google Scholar 

Cao VD, Luo G, Korynta S, Liu H, Liang Y, Shanklin J, Altpeter F (2023) Intron-mediated enhancement of DIACYLGLYCEROL ACYLTRANSFERASE 1 expression in energycane promotes a step change for lipid accumulation in vegetative tissues. Biotechnology for Biofuels and Bioproducts 16(1):153

CAS  PubMed  PubMed Central  Google Scholar 

Chan M-T, Yu S-M (1998) The 3′ untranslated region of a rice α-amylase gene functions as a sugar-dependent mRNA stability determinant. Proc Natl Acad Sci 95(11):6543–6547

CAS  PubMed  PubMed Central  Google Scholar 

Chan M-T, Chao Y-C, Yu S-M (1994) Novel gene expression system for plant cells based on induction of alpha-amylase promoter by carbohydrate starvation. J Biol Chem 269(26):17635–17641

CAS  PubMed  Google Scholar 

Chen P-W, Lu C-A, Yu T-S, Tseng T-H, Wang C-S, Yu S-M (2002) Rice α-amylase transcriptional enhancers direct multiple mode regulation of promoters in transgenic rice. J Biol Chem 277(16):13641–13649

CAS  PubMed  Google Scholar 

Chen M-H, Huang L-F, Li H-m, Chen Y-R, Yu S-M (2004) Signal peptide-dependent targeting of a rice α-amylase and cargo proteins to plastids and extracellular compartments of plant cells. Plant Physiol 135(3):1367–1377

CAS  PubMed  PubMed Central  Google Scholar 

Chen W, McKenna A, Schreiber J, Haeussler M, Yin Y, Agarwal V, Noble WS, Shendure J (2019) Massively parallel profiling and predictive modeling of the outcomes of CRISPR/Cas9-mediated double-strand break repair. Nucleic Acids Res 47(15):7989–8003

CAS  PubMed  PubMed Central  Google Scholar 

Chiang C-M, Yeh F-S, Huang L-F, Tseng T-H, Chung M-C, Wang C-S, Lur H-S, Shaw J-F, Yu S-M (2005) Expression of a bi-functional and thermostable amylopullulanase in transgenic rice seeds leads to autohydrolysis and altered composition of starch. Mol Breeding 15:125–143

CAS  Google Scholar 

Clancy M, Hannah LC (2002) Splicing of the maize Sh1 first intron is essential for enhancement of gene expression, and a T-rich motif increases expression without affecting splicing. Plant Physiol 130(2):918–929

CAS  PubMed  PubMed Central  Google Scholar 

Deltcheva E, Chylinski K, Sharma CM, Gonzales K, Chao Y, Pirzada ZA, Eckert MR, Vogel J, Charpentier E (2011) CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III. Nature 471(7340):602–607

CAS  PubMed  PubMed Central  Google Scholar 

Dickey TH, Tang WK, Butler B, Ouahes T, Orr-Gonzalez S, Salinas ND, Lambert LE, Tolia NH (2022) Design of the SARS-CoV-2 RBD vaccine antigen improves neutralizing antibody response. Sci Adv 8(37):eabq8276

CAS  PubMed  PubMed Central  Google Scholar 

Dillingham MS, Kowalczykowski SC (2008) RecBCD enzyme and the repair of double-stranded DNA breaks. Microbiol Mol Biol Rev 72(4):642–671

CAS  PubMed  PubMed Central  Google Scholar 

Felsenfeld G, Boyes J, Chung J, Clark D, Studitsky V (1996) Chromatin structure and gene expression. Proc Natl Acad Sci 93(18):9384–9388

CAS  PubMed  PubMed Central  Google Scholar 

Ferreira AC, Rebelo BA, Abranches R (2023) A simplified protocol for Agrobacterium-mediated transformation of cell suspension cultures of the model species Medicago truncatula A17. Plant Cell, Tissue Organ Cul (PCTOC) 153(3):669–675

CAS  Google Scholar 

Francisco JA, Gawlak SL, Miller M, Bathe J, Russell D, Chace D, Mixan B, Zhao L, Fell HP, Siegall CB (1997) Expression and characterization of bryodin 1 and a bryodin 1-based single-chain immunotoxin from tobacco cell culture. Bioconjug Chem 8(5):708–713

CAS  PubMed  Google Scholar 

Gallegos JE, Rose AB (2019) An intron-derived motif strongly increases gene expression from transcribed sequences through a splicing independent mechanism in Arabidopsis thaliana. Sci Rep 9(1):13777

PubMed  PubMed Central  Google Scholar 

Garcia-Cordero J, Mendoza-Ramirez J, Fernandez-Benavides D, Roa-Velazquez D, Filisola-Villasenor J, Martinez-Frias SP, Sanchez-Salguero ES, Miguel-Rodriguez CE, Maravillas Montero JL, Torres-Ruiz JJ (2021) Recombinant protein expression and purification of N and RBD of SARS from mammalian cells and their potential applications. Diagnostics 11(10):1808

CAS  PubMed  PubMed Central  Google Scholar 

García-Mauriño SM, Rivero-Rodríguez F, Velázquez-Cruz A, Hernández-Vellisca M, Díaz-Quintana A, De la Rosa MA, Díaz-Moreno I (2017) RNA binding protein regulation and cross-talk in the control of AU-rich mRNA fate. Front Mol Biosci 4:71

PubMed  PubMed Central  Google Scholar 

Ghaderi D, Zhang M, Hurtado-Ziola N, Varki A (2012) Production platforms for biotherapeutic glycoproteins Occurrence, impact, and challenges of non-human sialylation. Biotechnol Genet Eng Rev 28(1):147–176

CAS  PubMed  Google Scholar 

Hager KJ, Pérez Marc G, Gobeil P, Diaz RS, Heizer G, Llapur C, Makarkov AI, Vasconcellos E, Pillet S, Riera F (2022) Efficacy and safety of a recombinant plant-based adjuvanted Covid-19 vaccine. N Engl J Med 386(22):2084–2096

CAS  PubMed  Google Scholar 

Han W, Li Z, Guo Y, He K, Li W, Xu C, Ge L, He M, Yin X, Zhou J (2023) Efficient precise integration of large DNA sequences with 3′-overhang dsDNA donors using CRISPR/Cas9. Proc Natl Acad Sci 120(22):e2221127120

CAS  PubMed  PubMed Central  Google Scholar 

He X, Tan C, Wang F, Wang Y, Zhou R, Cui D, You W, Zhao H, Ren J, Feng B (2016) Knock-in of large reporter genes in human cells via CRISPR/Cas9-induced homology-dependent and independent DNA repair. Nucleic Acids Res 44(9):e85–e85

PubMed  PubMed Central  Google Scholar 

Hong S-Y, Lee T-S, Kim J, Jung J-H, Choi C-W, Kim T-G, Kwon T-H, Jang Y-S, Yang M-S (2008) Tumor targeting of humanized fragment antibody secreted from transgenic rice cell suspension culture. Plant Mol Biol 68:413–422

CAS  PubMed  Google Scholar 

Huang N, Chandler J, Thomas BR, Koizumi N, Rodriguez RL (1993) Metabolic regulation of α-amylase gene expression in transgenic cell cultures of rice (Oryza sativa L.). Plant Mol Biol 23:737–747

CAS  PubMed  Google Scholar 

Huang L-F, Liu Y-K, Lu C-A, Hsieh S-L, Yu S-M (2005) Production of human serum albumin by sugar starvation induced promoter and rice cell culture. Transgenic Res 14:569–581

CAS  PubMed  Google Scholar 

Huang L-F, Tan C-C, Yeh J-F, Liu H-Y, Liu Y-K, Ho S-L, Lu C-A (2015) Efficient secretion of recombinant proteins from rice suspension-cultured cells modulated by the choice of signal peptide. PLoS ONE 10(10):e0140812

PubMed  PubMed Central  Google Scholar 

Jensen KT, Fløe L, Petersen TS, Huang J, Xu F, Bolund L, Luo Y, Lin L (2017) Chromatin accessibility and guide sequence secondary structure affect CRISPR-Cas9 gene editing efficiency. FEBS Lett 591(13):1892–1901

CAS  PubMed