Expression Patterns In Different Tissues Research Articles

Differential expression of gibberellin- and abscisic acid-related genes implies their roles in the bud activity-dormancy transition of tea plants.

Thirty genes involved in GA and ABA metabolism and signalling were identified, and the expression profiles indicated that they play crucial roles in the bud activity-dormancy transition in tea plants. Gibberellin (GA) and abscisic acid (ABA) are fundamental phytohormones that extensively regulate plant growth and development, especially bud dormancy and sprouting transition in perennial plants. However, there is little information on GA- and ABA-related genes and their expression profiles during the activity-dormancy transition in tea plants. In the present study, 30 genes involved in the metabolism and signalling pathways of GA and ABA were first identified, and their expression patterns in different tissues were assessed. Further evaluation of the expression patterns of selected genes in response to GA3 and ABA application showed that CsGA3ox, CsGA20ox, CsGA2ox, CsZEP and CsNCED transcripts were differentially expressed after exogenous treatment. The expression profiles of the studied genes during winter dormancy and spring sprouting were investigated, and somewhat diverse expression patterns were found for GA- and ABA-related genes. This diversity was associated with the bud activity-dormancy cycle of tea plants. These results indicate that the genes involved in the metabolism and signalling of GA and ABA are important for regulating the bud activity-dormancy transition in tea plants.

The identification and expression analysis of candidate chemosensory genes in the bird cherry-oat aphid Rhopalosiphum padi (L.).

The bird cherry-oat aphid Rhopalosiphum padi (L.) is one of the most important wheat pests with polyphagia and autumn migrants. And, chemosensory genes were thought to play a key role in insect searching their hosts, food and mate. However, a systematic identification of the chemosensory genes in this pest has not been reported. Thus, in this study, we identified 14 odorant-binding proteins, nine chemosensory proteins, one sensory neuron membrane protein, 15 odorant receptors, 19 gustatory receptors and 16 ionotropic receptors from R. padi transcriptomes with a significantly similarity (E-value < 10-5) to known chemosensory genes in Acyrthosiphon pisum and Aphis gossypii. In addition, real-time quantitative polymerase chain reaction (RT-qPCR) was employed to determine the expression profiles of obtained genes. Among these obtained genes, we selected 23 chemosensory genes to analyze their expression patterns in different tissues, wing morphs and host plants. We found that except RpOBP1, RpOBP3, RpOBP4 and RpOBP5, the rest of the selected genes were highly expressed in the head with antennae compared with body without head and antennae. Besides that, the stimulation and depression of chemosensory genes by plant switch indicated that chemosensory genes might be involved in the plant suitability assessment. These results not only provide insights for the potential roles of chemosensory genes in plant search and perception of R. padi but also provide initial background information for the further research on the molecular mechanism of the polyphagia and autumn migrants of it. Furthermore, these chemosensory genes are also the candidate targets for pest management control in future.

Genome-wide identification and expression profile analysis of CCH gene family in Populus.

Copper plays key roles in plant physiological activities. To maintain copper cellular homeostasis, copper chaperones have important functions in binding and transporting copper to target proteins. Detailed characterization and function analysis of a copper chaperone, CCH, is presently limited to Arabidopsis. This study reports the identification of 21 genes encoding putative CCH proteins in Populus trichocarpa. Besides sharing the conserved metal-binding motif MXCXXC and forming a βαββαβ secondary structure at the N-terminal, all the PtCCHs possessed the plant-exclusive extended C-terminal. Based on their gene structure, conserved motifs, and phylogenetic analysis, the PtCCHs were divided into three subgroups. Our analysis indicated that whole-genome duplication and tandem duplication events likely contributed to expansion of the CCH gene family in Populus. Tissue-specific data from PlantGenIE revealed that PtCCH genes had broad expression patterns in different tissues. Quantitative real-time RT-PCR (qRT-PCR) analysis revealed that PnCCH genes of P. simonii × P. nigra also had different tissue-specific expression traits, as well as different inducible-expression patterns in response to copper stresses (excessive and deficiency). In summary, our study of CCH genes in the Populus genome provides a comprehensive analysis of this gene family, and lays an important foundation for further investigation of their roles in copper homeostasis of poplar.

Identification of TPS family members in apple (Malus x domestica Borkh.) and the effect of sucrose sprays on TPS expression and floral induction

Trehalose (α-D-glucopyranosyl α-D-glucopyranoside) is a non-reducing disaccharide that serves as a carbon source and stress protectant in apple trees. Trehalose-6-phosphate (T6P) is the biosynthetic precursor of trehalose. It functions as a crucial signaling molecule involved in the regulation of floral induction, and is closely related to sucrose. Trehalose-6-phosphate synthase (TPS) family members are pivotal components of the T6P biosynthetic pathway. The present study identified 13 apple TPS family members and characterized their expression patterns in different tissues and in response to exogenous application of sucrose during floral induction. ‘Fuji’ apple trees were sprayed with sucrose prior to the onset of floral induction. Bud growth, flowering rate, and endogenous sugar levels were then monitored. The expression of genes associated with sucrose metabolism and flowering were also characterized by RT-quantitative PCR. Results revealed that sucrose applications significantly improved flower production and increased bud size and fresh weight, as well as the sucrose content in buds and leaves. Furthermore, the expression of MdTPS1, 2, 4, 10, and 11 was rapidly and significantly up-regulated in response to the sucrose treatments. In addition, the expression levels of flowering-related genes (e.g., SPL genes, FT1, and AP1) also increased in response to the sucrose sprays. In summary, apple TPS family members were identified that may influence the regulation of floral induction and other responses to sucrose. The relationship between sucrose and T6P or TPS during the regulation of floral induction in apple trees is discussed.

Identification of fasciclin-like arabinogalactan proteins in textile hemp (Cannabis sativa L.): in silico analyses and gene expression patterns in different tissues

BackgroundThe fasciclin-like arabinogalactan proteins (FLAs) belong to the arabinogalactan protein (AGP) superfamily and are known to play different physiological roles in plants. This class of proteins was shown to participate in plant growth, development, defense against abiotic stresses and, notably, cell wall biosynthesis. Although some studies are available on the characterization of FLA genes from different species, both woody and herbaceous, no detailed information is available on the FLA family of textile hemp (Cannabis sativa L.), an economically important fibre crop.ResultsBy searching the Cannabis genome and EST databases, 23 CsaFLAs have been here identified which are divided into four phylogenetic groups. A real-time qPCR analysis performed on stem tissues (isolated bast fibres and shivs sampled at three heights), hypocotyls (6-9-12-15-17-20 days-old), whole seedlings, roots, leaves and female/male flowers of the monoecious fibre variety Santhica 27, indicates that the identified FLA genes are differentially expressed. Interestingly, some hemp FLAs are expressed during early phases of fibre growth (elongation), while others are more expressed in the middle and base of the stem and thus potentially involved in secondary cell wall formation (fibre thickening). The bioinformatic analysis of the promoter regions shows that the FLAs upregulated in the younger regions of the stem share a conserved motif related to flowering control and regulation of photoperiod perception. The promoters of the FLA genes expressed at higher levels in the older stem regions, instead, share a motif putatively recognized by MYB3, a transcriptional repressor belonging to the MYB family subgroup S4.ConclusionsThese results point to the existence of a transcriptional network fine-tuning the expression of FLA genes in the older and younger regions of the stem, as well as in the bast fibres/shivs of textile hemp. In summary, our study paves the way for future analyses on the biological functions of FLAs in an industrially relevant fibre crop.

Gene and expression analysis of the hexamerin family proteins from the grasshopper, Locusta migratoria (Orthoptera: Acridoidea)

ABSTRACTHexamerins are large hemolymph-proteins that have been discovered in all insect species. According to the present study, hexamerins are not only storage proteins that provide amino acids and energy, but also transport hormones such as ecdysteroids. The hexamerin family genes cDNA from the grasshopper Locusta migratoria were cloned using RT-PCR and RACE methods. The biological functions of LmiHx5 were studied by RNA interference (RNAi), and qRT-PCR was performed to detect LmiHx transcripts after RNAi. Compared to the transcription database previously obtained, four family members (LmiHx1, LmiHx2, LmiHx4 and LmiHx5) of different LmiHx were determined. Homologous sequence alignments showed that the consistency of the amino acid sequence of LmiHx family members was 32%–43% and their encoded protein have the same three hemocyanin domains: hemocyanin-C, hemocyanin-N and hemocyanin-M. Gene expression patterns in different tissues and at different developmental stages showed that the LmiHx family genes are widely expressed in both female and male adults and at all developmental stages. The expression showed cyclical fluctuation with the nymphs molt. In addition, LmiHx2 mRNA expression level was the highest in fat body. LmiHx5 mRNA levels substantially decreased at 12, 24 and 48 h after dsLmiHx5 injection compared to the negative controls and almost not expressed at 96 h after dsRNA injection. The relative expression levels of other hexamerin family members showed varying degrees of increase after LmiHx5 RNAi. We speculate that hexamerin family gene members showed functional compensation.

Genome-wide identification and expression profiling analysis of brassinolide signal transduction genes regulating apple tree architecture

Brassinolide (BR) is crucial for regulating plant architecture. Apple dwarfing rootstocks are used to control apple tree size. However, information regarding the effects of BR on apple trees is limited. In addition, the molecular mechanism underlying the dwarfing of apple rootstocks is poorly understood. To elucidate the role of BR signal transduction genes in controlling apple tree architecture, five BR receptor kinase 1 (BRI1), nine BR-signaling kinase 1 (BSK1), two BRI1 KINASE INHIBITOR 1 (BKI1), and seven BR-insensitive 2 (BIN2) genes were analyzed. Bioinformatic analyses revealed that gene duplication events likely contributed to the expansion and evolution of the identified genes. Nine homologs between apple and Arabidopsis thaliana were also identified, and their expression patterns in different tissues were characterized. Exogenous BR treatments increased the primary shoot length and altered the expression of BR signal transduction genes (MdBRI1-5, MdBSK3-8, MdBKI1–2, MdBIN1–4, and MdBIN6/7). The scion of Fuji/Malling 9 (M.9) trees exhibited inhibited growth compared with that of Fuji/Fuji trees. The Fuji/M.9 trees had lower levels of the positive regulators of BR signaling (MdBRI1-5,MdBSK1, MdBSK4/7, and MdBSK6) and higher levels of the negative regulators (MdBIN5-7) compared with the Fuji/Fuji trees. Thus, the above-mentioned genes may help to regulate apple tree size in response to BR. In addition, MdBRI1–5, MdBSK1, MdBSK4/7, MdBSK6, and MdBIN5–7 have important roles in different grafting combinations. Our results may provide the basis for future analyses of BR signal transduction genes regarding their potential involvement in the regulation of plant architecture.

Identification and expression analysis of fetuin B (FETUB) in turbot (Scophthalmus maximus L.) mucosal barriers following bacterial challenge

Fetuin B (FETUB), a recently described cysteine proteinase inhibitor, has numerous conserved N-glycosylation sites, species-specific O-glycosylation sites, and two cystatin (CY) domains. FETUB is likely to play regulatory roles in acute inflammation, female infertility, fish organogenesis and tumor suppression. In the present study, transcript of turbot FETUB gene was captured, its protein structure and expression patterns in different tissues with emphasis on mucosal barriers following different bacterial infection were characterized. Turbot FETUB gene showed the closest relationship with Takifugu rubripes in phylogenetic analysis. In addition, FETUB was ubiquitously expressed in all examined tissues with the highest expression level in skin. Finally, FETUB gene showed different expression patterns following both bacterial challenge. The rapidly and significantly differential expression patterns of FETUB in mucosal surfaces against bacterial infections might indicate its key roles to prevent pathogen attachment and entry in turbot mucosal immunity. Functional studies should be carried out to further characterize the FETUB and avail utilization of its function to increase the disease resistance of turbot in maintaining the integrity of the mucosal barriers against infections and to facilitate selection of the fine family/varieties of disease resistance in turbot.

Genome-wide analysis of WOX genes in upland cotton and their expression pattern under different stresses

BackgroundWUSCHEL-related homeobox (WOX) family members play significant roles in plant growth and development, such as in embryo patterning, stem-cell maintenance, and lateral organ formation. The recently published cotton genome sequences allow us to perform comprehensive genome-wide analysis and characterization of WOX genes in cotton.ResultsIn this study, we identified 21, 20, and 38 WOX genes in Gossypium arboreum (2n = 26, A2), G. raimondii (2n = 26, D5), and G. hirsutum (2n = 4x = 52, (AD)t), respectively. Sequence logos showed that homeobox domains were significantly conserved among the WOX genes in cotton, Arabidopsis, and rice. A total of 168 genes from three typical monocots and six dicots were naturally divided into three clades, which were further classified into nine sub-clades. A good collinearity was observed in the synteny analysis of the orthologs from At and Dt (t represents tetraploid) sub-genomes. Whole genome duplication (WGD) and segmental duplication within At and Dt sub-genomes played significant roles in the expansion of WOX genes, and segmental duplication mainly generated the WUS clade. Copia and Gypsy were the two major types of transposable elements distributed upstream or downstream of WOX genes. Furthermore, through comparison, we found that the exon/intron pattern was highly conserved between Arabidopsis and cotton, and the homeobox domain loci were also conserved between them. In addition, the expression pattern in different tissues indicated that the duplicated genes in cotton might have acquired new functions as a result of sub-functionalization or neo-functionalization. The expression pattern of WOX genes under different stress treatments showed that the different genes were induced by different stresses.ConclusionIn present work, WOX genes, classified into three clades, were identified in the upland cotton genome. Whole genome and segmental duplication were determined to be the two major impetuses for the expansion of gene numbers during the evolution. Moreover, the expression patterns suggested that the duplicated genes might have experienced a functional divergence. Together, these results shed light on the evolution of the WOX gene family, and would be helpful in future research.

Antennal transcriptome and odorant binding protein expression profiles of an invasive mealybug and its parasitoid

AbstractOlfaction is fundamental to insect survival due to its roles in host location and interspecific communications. Here, we analysed the transcriptomes of odorant binding proteins (OBPs) from the invasive mealybug Phenacoccus solenopsis and its endoparasitoid Aenasius bambawalei through RNA‐Seq. The antennal transcriptomes of P. solenopsis and A. bambawalei were assembled, and gene ontology (GO) annotation indicated that the relative abundance of transcripts associated with specific GO terms was highly similar between the two species. We obtained 12 putative odorant binding proteins (OBPs), four chemosensory proteins (CSPs), four odorant receptors (ORs), one gustatory receptor (GR) and one sensory neuron membrane protein (SNMP) from P. solenopsis. There were 54 putative OBPs, 226 ORs, 41 GRs and three SNMPs in A. bambawalei. PsolOBPs exhibited high expression in the third instar nymph and varied expression in female adults of P. solenopsis. Almost all candidate AbamOBPs were expressed at high levels in the sensory organs (antennae, heads and legs) of adult A. bambawalei of both sexes. Among them, AbamOBP31 exhibited an obvious female antennal‐specific expression pattern. AbamOBP1, AbamOBP23, AbamOBP24 and AbamOBP30 were expressed at high levels in male antenna. This study for the first time identified the chemosensory genes and determined their expression patterns in different tissues of the two species. Our results provide important molecular information for the exploration of chemosensory mechanisms in these two species.

Identification and expression of cuticular protein genes based on Locusta migratoria transcriptome

Many types of cuticular proteins are found in a single insect species, and their number and features are very diversified among insects. The cuticle matrix consists of many different proteins that confer the physical properties of the exoskeleton. However, the number and properties of cuticle proteins in Locusta migratoria remain unclear. In the present study, Illumina sequencing and de novo assembly were combined to characterize the transcriptome of L. migratoria. Eighty-one cuticular protein genes were identified and divided into five groups: the CPR family (51), Tweedle (2), CPF/CPFLs (9), CPAP family (9), and other genes (10). Based on the expression patterns in different tissues and stages, most of the genes as a test were distributed in the integument, pronotum and wings, and expressed in selected stages with different patterns. The results showed no obvious correlation between the expression patterns and the conservative motifs. Additionally, each cluster displayed a different expression pattern that may possess a different function in the cuticle. Furthermore, the complexity of the large variety of genes displayed differential expression during the molting cycle may be associated with cuticle formation and may provide insights into the gene networks related to cuticle formation.

Evolution of Gene Expression Balance Among Homeologs of Natural Polyploids.

Polyploidy is a major evolutionary process in eukaryotes, yet the expression balance of homeologs in natural polyploids is largely unknown. To study this expression balance, the expression patterns of 2180 structurally well-characterized genes of wheat were studied, of which 813 had the expected three copies and 375 had less than three. Copy numbers of the remaining 992 ranged from 4 to 14, including homeologs, orthologs, and paralogs. Of the genes with three structural copies corresponding to homeologs, 55% expressed from all three, 38% from two, and the remaining 7% expressed from only one of the three copies. Homeologs of 76–87% of the genes showed differential expression patterns in different tissues, thus have evolved different gene expression controls, possibly resulting in novel functions. Homeologs of 55% of the genes showed tissue-specific expression, with the largest percentage (14%) in the anthers and the smallest (7%) in the pistils. The highest number (1.72/3) of homeologs/gene expression was in the roots and the lowest (1.03/3) in the anthers. As the expression of homeologs changed with changes in structural copy number, about 30% of the genes showed dosage dependence. Chromosomal location also impacted expression pattern as a significantly higher proportion of genes in the proximal regions showed expression from all three copies compared to that present in the distal regions.

Molecular cloning and characterization of S-adenosylmethionine decarboxylase gene in rubber tree (Hevea brasiliensis).

S-Adenosylmethionine decarboxylase (SAMDC) is a key rate-limiting enzyme involved in polyamines biosynthesis, and it plays important roles in plant growth, development and stresses response. However, no SAMDC gene was reported in rubber tree. Here we report characteristics of an SAMDC gene (HbSAMDC1) in rubber tree. HbSAMDC1 contains a 1080bp open reading frame (ORF) encoding 359 amino acids. Quantitative real-time PCR analyses revealed that HbSAMDC1 exhibited distinct expression patterns in different tissues and was regulated by various stresses, including drought, cold, salt, wounding, and H2O2 treatments. HbSAMDC1 5' untranslated region (UTR) contains a highly conserved overlapping tiny and small upstream ORFs (uORFs), encoding 2 and 52 amino acid residues, respectively. No introns were located in the main ORF of HbSAMDC1, whereas two introns were found in the 5' UTR. In transgenic tobaccos, the highly conserved small uORF of HbSAMDC1 is found to be responsible for translational repression of downstream β-glucuronidase reporter. To our knowledge, this is the first report on molecular cloning, expression profiles, and 5' UTR characteristics of HbSAMDC1. These results lay solid foundation for further elucidating HbSAMDC1 function in rubber tree.

Cloning, molecular characterization, and spatial and developmental expression analysis of GPR41 and GPR43 genes in New Zealand rabbits

Short-chain fatty acids (SCFAs) play a regulatory role in various physiological processes in mammals and act as endogenous ligands for the G protein-coupled receptors (GPR) 41 and 43. The role of GPR41 and GPR43 in mediating SCFA signaling in the rabbit remains unclear. The present study was to investigate the sequence of the GPR41 and GPR43 messenger RNA (mRNA) and their expression pattern in different tissues and developmental stages in New Zealand rabbit. Comparison of genomic sequences in GenBank using the Basic Local Alignment Search Tool program suggested that the New Zealand rabbit GPR41 mRNA has high similarities with the human (84%), bovine (84%) and Capra hircus (84%) genes. Similarly, GPR43 mRNA has high similarity with the rat (84%) and mouse (84%) genes. Real-time PCR results indicated that GPR41 and GPR43 mRNA were expressed throughout rabbit’s whole development and were expressed in several tissues. G protein-coupled receptor 41 and GPR43 mRNA were most highly expressed in pancreas (P<0.05) and s.c. adipose tissue (P<0.05), respectively. The expression levels of GPR41 mRNA was down-regulated in duodenum, cecum (P<0.05) and pancreas and up-regulated in jejunum, ileum, adipose tissue and spleen during growth. G protein-coupled receptor 43GPR43 mRNA was highly expressed in the duodenum, jejunum, ileum, colon, cecum and lung at 15th day (P<0.05), whereas the expression levels in the pancreas and spleen increased later after birth, with the highest expression at 60th day (P<0.05).

Expression pattern of subA in different tissues and blood-feeding status in Haemaphysalis flava.

Tick-borne-diseases (TBD) pose a huge threat to the health of both humans and animals worldwide. Tick vaccines constitute an attractive alternative for tick control, due to their cost-efficiency and environmental-friendliness. Subolesin, a protective antigen against ticks, is reported to be a promising candidate for the development of broad-spectrum vaccines. However, the entire length of its gene, subA, and its gene expression pattern in different tissues and blood-feeding status (or different levels of engorgement) have not been studied extensively. In our study, the full-length of subA in Haemaphysalis flava, Rhipicephalus haemaphysaloides, Rhipicephalus microplus, and Dermacentor sinicus was cloned by RACE-PCR. The subA expression pattern was analyzed further in H. flava in different tissues and blood-feeding status by RT-PCR. We found that the full-length of subA in H. flava, R. haemaphysaloides, R. microplus, and D. sinicus was 1318, 1498, 1316, and 1769bp, respectively, with encoded proteins at 180, 162, 162, and 166aa in length, respectively. The primary structure of subolesin in H. flava included three conserved regions and two hypervariable regions, with no signal peptide. SubA expression in female H. flava of different blood-feeding status was in the order of the fasted<the 1/4-engorged<the half-engorged<the fully-engorged (p<0.01). Tissue expression of subA was in the order of salivary gland>midgut>integument (p<0.01), but its expression in salivary glands was not statistically different from that in ovaries. We concluded that subolesin was a conserved antigen and that subA was expressed differentially in H. flava in different tissues and blood-feeding status. Those features made subolesin feasible as a potential target antigen for development of a universal vaccine for the control of tick infestations and a reduction in TBD.

Genomic identification, characterization and differential expression analysis of SBP-box gene family in Brassica napus.

BackgroundSBP-box genes belong to one of the largest families of transcription factors. Though members of this family have been characterized to be important regulators of diverse biological processes, information of SBP-box genes in the third most important oilseed crop Brassica napus is largely undefined.ResultsIn the present study, by whole genome bioinformatics analysis and transcriptional profiling, 58 putative members of SBP-box gene family in oilseed rape (Brassica napus L.) were identified and their expression pattern in different tissues as well as possible interaction with miRNAs were analyzed. In addition, B. napus lines with contrasting branch angle were used for investigating the involvement of SBP-box genes in plant architecture regulation. Detailed gene information, including genomic organization, structural feature, conserved domain and phylogenetic relationship of the genes were systematically characterized. By phylogenetic analysis, BnaSBP proteins were classified into eight distinct groups representing the clear orthologous relationships to their family members in Arabidopsis and rice. Expression analysis in twelve tissues including vegetative and reproductive organs showed different expression patterns among the SBP-box genes and a number of the genes exhibit tissue specific expression, indicating their diverse functions involved in the developmental process. Forty-four SBP-box genes were ascertained to contain the putative miR156 binding site, with 30 and 14 of the genes targeted by miR156 at the coding and 3′UTR region, respectively. Relative expression level of miR156 is varied across tissues. Different expression pattern of some BnaSBP genes and the negative correlation of transcription levels between miR156 and its target BnaSBP gene were observed in lines with different branch angle.ConclusionsTaken together, this study represents the first systematic analysis of the SBP-box gene family in Brassica napus. The data presented here provides base foundation for understanding the crucial roles of BnaSBP genes in plant development and other biological processes.Electronic supplementary materialThe online version of this article (doi:10.1186/s12870-016-0852-y) contains supplementary material, which is available to authorized users.

Comparative analysis of MYB28 homologs and development of a MYB28-specific marker in Brassica napus L.

Glucosinolates are a major class of secondary metabolites in Brassicaceae species, whose degradation products are proving to be increasingly important for human health and in crop protection. MYB28 is important for regulating glucosinolate biosynthesis in Arabidopsis thaliana. Brassica napus L. is one of the closest relatives of A. thaliana, and in theory, contains several MYB28 homologs in its genome. Only a few transcriptional regulators of aliphatic glucosinolate biosynthesis genes in Brassica crops have been functionally characterized. Therefore, the aims of this study were to clarify the distribution of MYB28 homologs in the B. napus genome, and to determine the gene expression status and function of these homologs, which may have important implications for plant breeding. Based on the A. thaliana MYB28 sequence, six BnMYB28 homologs were identified and mapped to six linkage groups of a doubled haploid population. Gene expression analyses revealed that the homologs exhibited different expression patterns in different tissues. Additionally, the function of BnA9.MYB28 was confirmed by generating BnA9.MYB28-overexpressing transgenic plants and completing association mapping analyses. One insertion/deletion marker was detected in cultivars with high or low glucosinolate contents. Our results highlight the importance of MYB28 homologs for regulating complex glucosinolate traits in the polyploid crop B. napus. The gene and marker information generated in this study may be useful for marker-assisted breeding of oilseed rape.

Expression characteristics of ANGPTL-3 and ANGPTL-4 in duck liver and adipose tissues during early post-hatching development

Angiopoietin-like protein 3 and -4 (ANGPTL-3 and -4) are generally related to lipid metabolism as well as angiogenesis in animals, however very less was known about their mRNA expression characterizations in tissue development. In this study, the mRNA expressions of ANGPTL-3 and ANGPTL-4 (ANGPTL-3 and -4) and tissue distribution in Peking duck (Anas platyrhynchos) of 1 to 8 weeks of age were analyzed using quantitative real-time PCR methods. It was observed that ANGPTL-3 and -4 mRNAs were broadly expressed in duck liver and adipose tissues and were most abundant in intra-abdominal adipose tissue (AD). ANGPTL-3 and -4 had different expression patterns in tissues. These data suggested that both duck ANGPTL-3 and -4 could be related to the development of tissues, and ANGPTL-4 may contribute to the development of adipose tissue through promoting adipocyte differentiation.

Genome-wide identification and expression analysis of the YUCCA gene family in soybean (Glycine max L.)

YUCCA is an important enzyme which catalyzes a key rate-limiting step in the tryptophan-dependent pathway for auxin biosynthesis and implicated in several processes during plant growth and development. Genome wide analyses of YUCCA genes have been performed in Arabidopsis, rice, tomato, and Populus, but have never been characterized in soybean, one of the most important oil crops in the world. In this study, 22 GmYUCCA genes (GmYUCCA1-22) were identified and named based on soybean whole-genome sequence. Phylogenetic analysis of YUCCA proteins from Glycine max, Arabidopsis, Oryza sativa, tomato, and Populus euphratica revealed that GmYUCCA proteins could be divided into four subfamilies. Quantitative real-time RT-PCR (qRT-PCR) analysis showed that GmYUCCA genes have diverse expression patterns in different tissues and under various stress treatments. Compared to the wild type (WT), the transgenic GmYUCCA5 Arabidopsis plants displayed downward curling of the leaf blade margin, evident apical dominance, higher plant height, and shorter length of siliques. Our results provide a comprehensive analysis of the soybean YUCCA gene family and lay a solid foundation for further experiments in order to functionally characterize these gene members during soybean growth and development.

Identification of Nod like receptor C3 (NLRC3) in Asian seabass, Lates calcarifer: Characterisation, ontogeny and expression analysis after experimental infection and ligand stimulation.

Nod like receptors (NLRs) are a large group of cytoplasmic PRRs believed to play an important role in bacterial recognition in higher vertebrates. In this study, a novel Nod like receptor C3 (AsNLRC3) has been identified, cloned and characterised from Asian seabass, Lates calcarifer. The full-length AsNLRC3 transcript composed of a 4142bp nucleic acid sequence encode for a protein of 1134 deduced amino acids. Three signature domains identified are conserved NACHT-domain, C-terminal LLR domain and N-terminal CARD effector domain. From the domain architecture and phylogenetic analysis, it was quite evident that AsNLRC3 is different from the NLR subfamily C of other teleosts. AsNLRC3 expressed in all the 11 tissues tested but highly expressed in tissues facing external environment such as gill, hindgut and midgut. The ontogenic expression profile of this receptor showed constitutive expression throughout the embryonic and larval developmental stages, which could be an innate immune strategy against different marine pathogens for larval survival. Infection with Vibrio alginolyticus and poly I:C induction showed an alteration of expression pattern in different tissues but did not show significant alteration in expression with Staphylococcus aureus infection. Invitro study in Asian seabass kidney cell line (SISK) stimulated with different ligands such as LPS, PGN and poly I:C showed considerable up-regulation at some of the time-points tested. These results suggest that AsNLRC3 can be a pivotal cytosolic innate immune receptor for recognizing wide array of pathogens in a euryhaline teleost model like Asian seabass in diverse environmental conditions.