Transcriptome analysis of the Sepia pharaonis: Identification of low salinity stress-related information and microsatellite markers

Anders, 2010, Differential expression analysis for sequence count data, Genome Biol., 11, R106, 10.1186/gb-2010-11-10-r106 Barth, 2009, Stress induced and nuclear localized HIPP26 from Arabidopsis thaliana interacts via its heavy metal associated domain with the drought stress related zinc finger transcription factor ATHB29, Plant molecular biology, 69, 213, 10.1007/s11103-008-9419-0 Ciftciyilmaz, 2007, The EAR-motif of the Cys2/His2-type zinc finger protein Zat7 plays a key role in the defense response of Arabidopsis to salinity stress, Journal of Biological Chemistry, 282, 9260, 10.1074/jbc.M611093200 Dai, 2012 De Vos, 2019, Identification of salt stress response genes using the Artemia transcriptome, Aquaculture, 500, 305, 10.1016/j.aquaculture.2018.09.067 Fnu, 2011, Methylation of histone H3 lysine 36 enhances DNA repair by nonhomologous end-joining, Proceedings of the National Academy of Sciences of the United States of America, 108, 540, 10.1073/pnas.1013571108 Golldack, 2011, Plant tolerance to drought and salinity: stress regulating transcription factors and their functional significance in the cellular transcriptional network, Plant cell reports, 30, 1383, 10.1007/s00299-011-1068-0 Hromas, 2012, Chk1 phosphorylation of Metnase enhances DNA repair but inhibits replication fork restart, Oncogene, 31, 4245, 10.1038/onc.2011.586 Huang, 2012, Effects of salinity on fertilized egg hatch and survival activity index of the larvae of Sepia pharaonis, J. Guangdong Ocean Univ., 1, 38 Jia, 2019, Transcriptome analysis of the endangered Notopterygium incisum: cold-tolerance gene discovery and identification of EST-SSR and SNP markers, Plant Divers., 41, 1, 10.1016/j.pld.2019.01.001 Kexin, 2015 Langmead, 2012, Fast gapped-read alignment with Bowtie 2, Nat. Methods, 9, 357, 10.1038/nmeth.1923 Le, 2014, Effects of four ecological factors on the growth and survival of Sepia pharaonis larvae, J. Biol., 31, 33 Lee, 2005, The SET domain protein Metnase mediates foreign DNA integration and links integration to nonhomologous end-joining repair, Proceedings of the National Academy of Sciences of the United States of America, 102, 18075, 10.1073/pnas.0503676102 Li, 2011, RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome, BMC Bioinform., 12, 323, 10.1186/1471-2105-12-323 Ma, 2019, Comparative transcriptome analyses provide insights into the adaptation mechanisms to acute salt stresses in juvenile Sinonovacula constricta, Genes Genom., 41, 599, 10.1007/s13258-019-00805-x Mangum, 1986, Osmoregulation in marine and estuarine animals: Its influence on respiratory gas exchange and transport, Italian Journal of Zoology, 53, 1 Mardis, 2008, The impact of next-generation sequencing technology on genetics, Trends Genet., 24, 133, 10.1016/j.tig.2007.12.007 Miller, 1985, Repetitive zinc-binding domains in the protein transcription factor IIIA from Xenopus oocytes, The EMBO journal, 4, 1609, 10.1002/j.1460-2075.1985.tb03825.x Minton, 2001, First multi-generation culture of the tropical cuttlefish Sepia pharaonis Ehrenberg, 1831, Aquac. Int., 9, 379, 10.1023/A:1020535609516 Mortazavi, 2008, Mapping and quantifying mammalian transcriptomes by RNA-Seq, Nat. Methods, 5, 621, 10.1038/nmeth.1226 Nakasugi, 2014, Combining transcriptome assemblies from multiple de novo assemblers in the allo-tetraploid plant Nicotiana benthamiana, PLoS One, 9, 10.1371/journal.pone.0091776 Roper, 2005 Rozen, 2000, Primer3 on the WWW for general users and for biologist programmers, Methods Mol. Biol., 132, 365 Shaheen, 2010, 2010. Metnase/SETMAR: a domesticated primate transposase that enhances DNA repair, replication, and decatenation. 138, 559., Genetica, 138, 559, 10.1007/s10709-010-9452-1 Thiel, 2003, Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.), Theor. Appl. Genet., 106, 411, 10.1007/s00122-002-1031-0 Tulsani, 2019, Transcriptome landscaping for gene mining and SSR marker development in coriander (Coriandrum sativum L.), Genomics, 112, 1545, 10.1016/j.ygeno.2019.09.004 Wen, 2011, Effects of environmental factors on survival and behavior in juvenile cuttlefish Sepia pharaonis, Fish. Sci., 36, 321 Yang, 2013, HTQC: a fast quality control toolkit for Illumina sequencing data, BMC Bioinform., 14, 1, 10.1186/1471-2105-14-33