De novo assembly and characterization of stress transcriptome and regulatory networks under temperature, salt and hormone stresses in Lilium lancifolium

Abstract

Plants have continually confrontation with different abiotic stresses, including salt, low temperature, drought or hormone stress. The plants acclimate to the environmental stresses relating with the falls of the molecular mesh including the stress signal receiver, signal transcriptional regulation and the expression of functional and structure genes. Using the RNA-seq, we carried out a transcriptional analysis under cold treatment for investigating a profound comprehension of the signal network and molecular metabolisms reaction included in abiotic stress reaction for Lilium lancifolium. Our study identified 18,722 unigenes had demonstrated the resemblance to the known exact proteins in the Swiss-Prot protein database and classified them by Gene ontology into three primary kinds: cellular component, biological process, and molecular function, and then 15,898 unigenes aligned to existing sequences in the KEGG databases. Based on the transcriptome results of cold stress, more stress-related genes were identified and analyzed of their expressions in other abiotic stress treatments as 37 °C, ABA, JA and Na. Meanwhile, bioinformatics qRT-PCR analyses of stress genes as LlDREB1, LlAP2, LlNAC1, LlHOT, LlR2R3-MYB and LlCDPK revealed that novel candidate genes encoding ethylene responsive transporters and serine/threonine receptor-like kinases, which contributed to speculate the signal regulation pathway during the abiotic stresses; engineering genes could also boost the tolerance to stress, as protected and maintained the function and structure of cellular components. Our research conjectured the abiotic stress signal transduction pathway and identified the expected key ingredients regulating the stress tolerance in Lilium lancifolium, which would enable the in-depth molecular exploration of stress-tolerance mechanisms in lily.

Characterization of the Transcriptome of the Xerophyte Ammopiptanthus mongolicus Leaves under Drought Stress by 454 Pyrosequencing

“…Approximately 2000 drought-responsive genes have been identified in Arabidopsis thaliana [ 5 ]. For some xerophytes, like Populus euphratica , gene discovery and transcriptome analyses have led to the identification of numerous potential stress-related genes [ 6 – 8 ]. These studies are contributing new gene resources, revealing drought responsive mechanisms in xerophytes and enabling production of more stress tolerant plants.…”

The proof is in the bulb: glycerol influences key stages of lily development

“…This was expected in view of the lily bulb function as a storage organ, in which reserves undergo multiple metabolic modifications (Lazare et al ., ). Similar results were obtained in other Lilium bulbs exposed to cold (Wang et al ., ), or abiotic stress (Wang et al ., ). Similarly to ‘Metabolic Process’, ‘Cellular Process’ was greatly represented at level 2, but its level 3‐derived GOs were not enriched.…”

“…Transcriptome analyses have been performed in several Lilium species, to explore the effect of cold exposure (Wang et al ., ; Villacorta‐Martin et al ., ), carbohydrate metabolism (Li et al ., ), stress (Wang et al ., ), and dormancy release (Wang et al ., ). To the best of our knowledge, no transcriptome analysis was ever performed in the context of bulb size.…”

Identification, Characterization and Expression Profiling of Stress-Related Genes in Easter Lily (Lilium formolongi)

“…After two months of growth, the seedlings were transferred to freshly prepared liquid MSH and were subjected to four different abiotic stress treatments: cold, heat, drought, and salt. To induce cold and heat stress, the seedlings were incubated at 4 °C and 37 °C for 48 h, respectively [ 46 ]. Drought treatment was applied by incubating the seedlings on 150 mm qualitative filter paper (Advantec ® , Tokyo, Japan) in a culture room under a 16 h light photoperiod at 25 °C for up to 48 h [ 47 ].…”

“…Drought treatment was applied by incubating the seedlings on 150 mm qualitative filter paper (Advantec ® , Tokyo, Japan) in a culture room under a 16 h light photoperiod at 25 °C for up to 48 h [ 47 ]. For salt treatment, the roots of seedlings were soaked in 200 mM NaCl solution at 25 °C for up to 48 h [ 46 ]; mock-treated plants were treated with water. The youngest 2–3 leaves and roots were sampled separately at 0 h, 2 h, 8 h, 16 h, 24 h, and 48 h after stress treatments, frozen immediately in liquid nitrogen, and stored at –80 °C for RNA isolation.…”