Willow transcript sequencing
Ontology highlight
ABSTRACT:
ORGANISM(S): Salix suchowensis
SUBMITTER: Jingjing Liu
PROVIDER: E-MTAB-1445 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
Similar Datasets
Project description:Compare the temporal gene expression of hepatic stellate cells in schistosoma japonica infected mice and Praziquantel treated mice.
2012-11-05 | E-MEXP-3441 | biostudies-arrayexpress
Project description:A microarray analysis of whole-genome gene expression and single feature polymorphism in a (Populus trichocarpa X Populus deltoides) X Populus deltoides pseudo-backcross pedigree. Genetic variation in gene expression was quantified for 55,793 predicted gene models based on a single probe per gene. Concurrently, sequence-level polymorphism was analyzed based on dedicated probes identified in a pilot study comprised of the two parent genotypes (GPL7169). Resultant data contributed to a high density genetic map and to analysis of the genetic architecture of gene expression in Populus. Keywords: Genetic analysis of gene expression and polymorphism, eQTL Data include one biological replicate of 178 segregating pseudobackcross progeny analyzed for gene expression (GE) using one probe per gene for 55793 independent gene models (probes E_POPLARSxxxxxPxxxxx) and single feature sequence polymorphism (SFP) using one probe per gene for 12084 independent gene models (probes G_POPLARSxxxxxPxxxxx). GE and SFP probes were selected from 6-7 probes per gene previously tested in a pilot study of the two parent trees of the cross (Populus deltoides X Populus trichocarpa).
2008-09-06 | E-GEOD-12623 | biostudies-arrayexpress
Project description:Radula is a unique foraging organ to Mollusca, which is important for their evolution and taxonomic classification. Many radulae are mineralized with metals. Although the remarkable mechanical properties of mineralized radula are well-studied, the formation of mineralization from nonmineralized radula is poorly understood. Taking advantage of the recently sequenced octopus and chiton genome, we were able to identify more species-specific radula proteins by proteomics. Comparing these proteomes enable us to gain insight into the molecular components of nonmineralized and mineralized radula, highlighting that iron mineralization in chiton radula is possibly due to the evolution of ferritins and peroxiredoxins. Through in vitro binding assay, ferritin is shown to be important to iron accumulation into the nonmineralized radula. Moreover, radula proteomes are well adapted to their functionality. Octopus radula has many scaffold modification proteins to suit flexibility while chiton radula has abundant sugar metabolism proteins (e.g. glycosyl hydrolases) to adapt to algae feeding. This study provides a foundation for the understanding of Mollusca radula formation and evolution and may inspire the synthesis of iron nanomaterials.
2022-10-27 | PXD035901 | Pride
Project description:Radula is a unique foraging organ to Mollusca, which is important for their evolution and taxonomic classification. Many radulae are mineralized with metals. Although the remarkable mechanical properties of mineralized radula are well-studied, the formation of mineralization from nonmineralized radula is poorly understood. Taking advantage of the recently sequenced octopus and chiton genome, we were able to identify more species-specific radula proteins by proteomics. Comparing these proteomes enable us to gain insight into the molecular components of nonmineralized and mineralized radula, highlighting that iron mineralization in chiton radula is possibly due to the evolution of ferritins and peroxiredoxins. Through in vitro binding assay, ferritin is shown to be important to iron accumulation into the nonmineralized radula. Moreover, radula proteomes are well adapted to their functionality. Octopus radula has many scaffold modification proteins to suit flexibility while chiton radula has abundant sugar metabolism proteins (e.g. glycosyl hydrolases) to adapt to algae feeding. This study provides a foundation for the understanding of Mollusca radula formation and evolution and may inspire the synthesis of iron nanomaterials.
2022-10-27 | PXD035073 | Pride
Project description:Radula is a unique foraging organ to Mollusca, which is important for their evolution and taxonomic classification. Many radulae are mineralized with metals. Although the remarkable mechanical properties of mineralized radula are well-studied, the formation of mineralization from nonmineralized radula is poorly understood. Taking advantage of the recently sequenced octopus and chiton genome, we were able to identify more species-specific radula proteins by proteomics. Comparing these proteomes enable us to gain insight into the molecular components of nonmineralized and mineralized radula, highlighting that iron mineralization in chiton radula is possibly due to the evolution of ferritins and peroxiredoxins. Through in vitro binding assay, ferritin is shown to be important to iron accumulation into the nonmineralized radula. Moreover, radula proteomes are well adapted to their functionality. Octopus radula has many scaffold modification proteins to suit flexibility while chiton radula has abundant sugar metabolism proteins (e.g. glycosyl hydrolases) to adapt to algae feeding. This study provides a foundation for the understanding of Mollusca radula formation and evolution and may inspire the synthesis of iron nanomaterials.
2022-10-27 | PXD032914 | Pride
Project description:We take the one year old plant for chilling stress (4M-BM-0C, 10h) and controls.Use the Affymetrix poplar gene chip to decrypt the gene functions and mechanisms in Populus simonii leaves. We used microarrays to detail the global programme of gene expression during chilling stress (4M-BM-0C, 10h). Populus simonii leaves were taken from chilling stress (4M-BM-0C, 10h) and controls for RNA extraction and hybridization on Affymetrix microarrays.BH11269-2_Zdqe 13 and BH11269-2_Zdqe 14 from chilling stress (4M-BM-0C, 10h) treatments, CK1 and CK2 controls.
2014-05-16 | E-GEOD-43872 | biostudies-arrayexpress
Project description:We take one-year-old plants for short-term water deficit treatments and controls. We use the Affymetrix Poplar GeneChip to decrypt the gene functions and mechanisms in Populus simonii leaves and detail the global program of gene expression during water deficit treatments. Populus simonii leaves were taken from short-term water-deficit-treated plants and control plants for RNA extraction and hybridization on Affymetrix microarrays. D1 and D2 are from water-deficit-treated plants, CK1 and CK2 are controls.
2012-04-26 | E-GEOD-37608 | biostudies-arrayexpress
Project description:We take the one year old plant for 100 mMol/L NaCl treatments 24 hours and controls. Use the Affymetrix poplar gene chip to decrypt the gene functions and mechanisms in Populus simonii leaves. We used microarrays to detail the global programme of gene expression during NaCl treatments. Populus simonii leaves were taken from 100 mMol/L NaCl treatments 24 hours and controls for RNA extraction and hybridization on Affymetrix microarrays.S1, S2 and S3 from NaCl treatments, CK1, CK2 and CK3 controls.
2014-11-27 | E-GEOD-42530 | biostudies-arrayexpress
Project description:To investigate the genetic relationship between two major grain length loci GS3 and qGL3, we developed the near-isogenic lines (NILs), NIL-GS3 (GS3/qGL3), NIL-qgl3 (gs3/qgl3), NIL-GS3/qgl3 (GS3/qgl3) in the background of 93-11 (gs3/qGL3) by crossing and MAS approach. Four samples was analyzed: three near-isogenic lines (NILs), NIL-GS3 (GS3/qGL3), NIL-qgl3 (gs3/qgl3), NIL-GS3/qgl3 (GS3/qgl3) and their background of 93-11. Every sample had three independed duplications. And the primary panicle with 3-6 cm length from the three NILs and 93-11 were used for RNA preparation and hybrid with Rice Genome OneArray Microarray (Phalanx Biotech Group).
2014-07-22 | E-GEOD-59619 | biostudies-arrayexpress
Project description:Tieguanyin (TGY) and Shuixian (SX) cultivars of Camellia sinensis were selected to explore the mechanism underlying the accumulation of the rare earth element lanthanum through proteomics. Roots and fresh leaves of TGY and SX with low- and high-accumulation potential for lanthanum, respectively, were studied; 845 differentially expressed proteins (DEPs) were identified. Gene ontology analysis showed that the DEPs are involved in redox processes and related to molecular functions, such as defense and oxidative stress reactions, catalytic activity, and metal ion binding. Kyoto Encyclopedia of Genes and Genomes metabolic pathway analysis showed that DEPs were associated with glutathione (GSH) and α-linolenic acid metabolism, plant pathogen interaction, and oxidative phosphorylation. Thirty-seven proteins in the GSH metabolism pathway showed significant differences, of which 18 GSH S-transferases show differential expression patterns in the root system.The expression multiples of GST (TEA004130.1) and GST (TEA032216.1) in T1L and T0L were 6.84 and 4.06, respectively, which were significantly higher than those in S1L and S0L. The lanthanum-induced activation of the GSH-related antioxidant defense system may cause the difference in TGY and SX. The LOX2.1 (TEA011765.1) and LOX2.1 (TEA011776.1 expression ratios) in the α-linolenic acid metabolic pathway were 2.44 and 6.43 in T1R and T0R, respectively, which were significantly higher than those in S1R snd S0R. The other differential proteins were also sig-nificantly upregulated in TGY leaves.The synthesis of specific substances induces lantha-num-associated defense responses in TGY, which is of great significance for the stability of its yield.
2023-03-11 | PXD039195 | Pride