Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcriptome profiling for wild-type, single and double mutants for Nuclear Factor YA1 (nf-ya1) and hypernodulation phenotype (har1) mutants in roots of Lotus japonicus

ABSTRACT: Acting in a partially redundant manner, NF-Ys were shown previously to regulate bacterial infection, including selection of a superior rhizobial strain, and to participate in mediating nodule structure formation. However, the exact mechanism(s) by which these transcriptional factors exert their symbiotic functions has remained elusive. Gene expression profiling for wild-type and Nuclear Factor YA (nf-ya)-A mutants in roots of Lotus japonicus were conducted 4 days after inoculation with Mesorhizobium loti in order to understand the interaction of NF-Ys and other genes in Lotus japonicus.

ORGANISM(S): Lotus japonicus

SUBMITTER: Krzysztof Szczyglowski

PROVIDER: E-MTAB-4970 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Lotus japonicus NF-YA1 Plays an Essential Role During Nodule Differentiation and Targets Members of the SHI/STY Gene Family.

Hossain Md Shakhawat MS Shrestha Arina A Zhong Sihui S Miri Mandana M Austin Ryan S RS Sato Shusei S Ross Loretta L Huebert Terry T Tromas Alexandre A Torres-Jerez Ivone I Tang Yuhong Y Udvardi Michael M Murray Jeremy D JD Szczyglowski Krzysztof K

Molecular plant-microbe interactions : MPMI 20161201 12

Legume plants engage in intimate relationships with rhizobial bacteria to form nitrogen-fixing nodules, root-derived organs that accommodate the microsymbiont. Members of the Nuclear Factor Y (NF-Y) gene family, which have undergone significant expansion and functional diversification during plant evolution, are essential for this symbiotic liaison. Acting in a partially redundant manner, NF-Y proteins were shown, previously, to regulate bacterial infection, including selection of a superior rhi ...[more]

PMID: 27929718

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Project description:Lotus is an aquatic plant that is sensitive to water loss, but its seeds are longevous after seed embryo dehydration and maturation. The great difference between the responses of vegetative organs and seeds to dehydration is related to the special protective mechanism in embryos. In this study, tandem mass tags (TMT)-labeled proteomics and parallel reaction monitoring (PRM) technologies were used to obtain novel insights into the physiological regulatory networks during lotus seed dehydration process. Totally, 60,266 secondary spectra and 32,093 unique peptides were detected. A total of 5,477 reliable proteins and 815 differentially expressed proteins (DEPs) were identified based on TMT data; of these, 582 DEPs were continuously down-regulated and 228 proteins were significantly up-regulated during the whole dehydration process. Bioinformatics and protein-protein interaction network analyses indicated that carbohydrate metabolism (including glycolysis/gluconeogenesis, galactose, starch and sucrose metabolism, pentose phosphate pathway, and cell wall organization), protein processing in ER, DNA repair, and antioxidative events had positive responses to lotus embryo dehydration. On the contrary, energy metabolism (metabolic pathway, photosynthesis, pyruvate metabolism, fatty acid biosynthesis) and secondary metabolism (terpenoid backbone, steroid, flavonoid biosynthesis) gradually become static status during lotus embryo water loss and maturation. Furthermore, non-enzymatic antioxidants and pentose phosphate pathway play major roles in antioxidant protection during dehydration process in lotus embryo; ABA signaling and the accumulation of oligosaccharides, late embryogenesis abundant proteins, and heat shock proteins may be the key factors to ensure the continuous dehydration and storage tolerance of lotus seed embryo. Stress physiology detection showed that H2O2 was the main ROS component inducing oxidative stress damage, and glutathione and vitamin E acted as the major antioxidant to maintain the REDOX balance of lotus embryo during the dehydration process. These results provide new insights to reveal the physiological regulatory networks of the protective mechanism of embryo dehydration in lotus.

Dataset Information

Transcriptome profiling for wild-type, single and double mutants for Nuclear Factor YA1 (nf-ya1) and hypernodulation phenotype (har1) mutants in roots of Lotus japonicus

Publications

Lotus japonicus NF-YA1 Plays an Essential Role During Nodule Differentiation and Targets Members of the SHI/STY Gene Family.

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