참고문헌
- Bates PD, Johnson SR, Cao X, Li J, Nam JW, Jaworski JG, et al. (2014) Fatty acid synthesis is inhibited by inefficient utilization of unusual fatty acids for glycerolipid assembly. Proc Natl Acad Sci USA 111(3), 1204-1209 https://doi.org/10.1073/pnas.1318511111
- Bumblauskiene L, Jakstas V, Janulis V, Mazdzieriene R, Ragazinskiene O. (2009) Preliminary analysis on essential oil composition of Perilla L. cultivated in Lithuania. Acta Pol Pharm 66(4), 409-413
- Chen G, Yin K, Wang C, Shi T. (2011a) De novo transcriptome assembly of RNA-Seq reads with different strategies. Sci China Life Sci 54(12), 1129-1133 https://doi.org/10.1007/s11427-011-4256-9
- Chen G, Li R, Shi L, Qi J, Hu P, Luo J, et al. (2011b) Revealing the missing expressed genes beyond the human reference genome by RNA-Seq. BMC Genomics 12, 590 https://doi.org/10.1186/1471-2164-12-590
- Cox MP, Peterson DA, Biggs PJ. (2010) SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data. BMC Bioinformatics 11, 485 https://doi.org/10.1186/1471-2105-11-485
- Fukushima A, Nakamura M, Suzuki H, Saito K, Yamazaki M. (2015) High-Throughput Sequencing and De Novo Assembly of Red and Green Forms of the Perilla frutescens var. crispa Transcriptome. PLoS One 10(6), e0129154 https://doi.org/10.1371/journal.pone.0139154
- Garber M, Grabherr MG, Guttman M, Trapnell C. (2011) Computational methods for transcriptome annotation and quantification using RNA-seq. Nat Methods 8(6), 469-477 https://doi.org/10.1038/nmeth.1613
- Gongora-Castillo E, Buell CR. (2013) Bioinformatics challenges in de novo transcriptome assembly using short read sequences in the absence of a reference genome sequence. Nat Prod Rep 30(4), 490-500 https://doi.org/10.1039/c3np20099j
- Grabherr MG, Haas BJ, Yassour M, Levin JZ, Thompson DA, Amit I, et al. (2011) Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol 29(7), 644-652 https://doi.org/10.1038/nbt.1883
- Harris MA, Clark J, Ireland A, Lomax J, Ashburner M, Foulger R, et al. (2004) The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res 32(Database issue), D258-261 https://doi.org/10.1093/nar/gkh036
- Iorizzo M, Senalik DA, Grzebelus D, Bowman M, Cavagnaro PF, Matvienko M, et al. (2011) De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity. BMC Genomics 12, 389 https://doi.org/10.1186/1471-2164-12-389
- Ito M, Kiuchi F, Yang LL, Honda G. (2000) Perilla citriodora from Taiwan and its phytochemical characteristics. Biol Pharm Bull 23(3), 359-362 https://doi.org/10.1248/bpb.23.359
- Illumina (http://www.illumina.com/products/truseq_rna_library_prep_kit_v2.html)
- Jung CS, Lee MH,Oh KW, HK Kim, Park CB, Sung JD, Suh DY. (2005) Discovery of New Diploid Perilla Species in Korea. Korean J. Breed 37(3), 152-154
- Kanehisa M, Goto S. (2000) KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res 28(1), 27-30 https://doi.org/10.1093/nar/28.1.27
- Kim HA, Lim CJ, Kim S, Choe JK, Jo SH, Baek N, et al. (2014) High-throughput sequencing and de novo assembly of Brassica oleracea var. Capitata L. for transcriptome analysis. PLoS One 9(3), e92087 https://doi.org/10.1371/journal.pone.0092087
- Kim HU, Chen GQ. (2015) Identification of hydroxy fatty acid and triacylglycerol metabolism-related genes in lesquerella through seed transcriptome analysis. BMC Genomics 16, 230 https://doi.org/10.1186/s12864-015-1413-8
- KAPA biosystems (http://www.kapabiosystems.com/productapplications/products/next-generation-sequencing-2/libraryquantification/)
- Li B, Fillmore N, Bai Y, Collins M, Thomson JA, Stewart R, et al. (2014) Evaluation of de novo transcriptome assemblies from RNA-Seq data. Genome Biol 15(12), 553 https://doi.org/10.1186/s13059-014-0553-5
- Langmead B, Trapnell C, Pop M, Salzberg SL. (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10(3), R25 https://doi.org/10.1186/gb-2009-10-3-r25
- Lee SC, Lee JK, Kim NH, Park JY, Kim HU, Lee HO, et al. (2014) Analysis of expressed sequence tags from a normalized cDNA library of perilla (Perilla frutescens). Journal of Plant Biology 57(5), 312-320 https://doi.org/10.1007/s12374-014-0263-2
- Marguerat S, Bahler J. (2010) RNA-seq: from technology to biology. Cell Mol Life Sci 67(4), 569-579 https://doi.org/10.1007/s00018-009-0180-6
- Martin JA, Wang Z. (2011) Next-generation transcriptome assembly. Nat Rev Genet 12(10), 671-682 https://doi.org/10.1038/nrg3068
- Ness RW, Siol M, Barrett SC. (2011) De novo sequence assembly and characterization of the floral transcriptome in cross- and self-fertilizing plants. BMC Genomics 12, 298 https://doi.org/10.1186/1471-2164-12-298
- Schulz MH, Zerbino DR, Vingron M, Birney E. (2012) Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels. Bioinformatics 28(8), 1086-1092 https://doi.org/10.1093/bioinformatics/bts094
- Wang Z, Gerstein M, Snyder M. (2009) RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 10(1), 57-63 https://doi.org/10.1038/nrg2484
- Zerbino DR, Birney E. (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18(5), 821-829 https://doi.org/10.1101/gr.074492.107
- Zhang J, Liang S, Duan J, Wang J, Chen S, Cheng Z, et al. (2012) De novo assembly and characterisation of the transcriptome during seed development, and generation of genic-SSR markers in peanut (Arachis hypogaea L.). BMC Genomics 13, 90 https://doi.org/10.1186/1471-2164-13-90
피인용 문헌
- Mapping Population vol.50, pp.1, 2018, https://doi.org/10.9787/KJBS.2018.50.1.13