Search Results (1,056)

Montane forests, characterized by complex terrain and diverse climates, serve as critical global biodiversity hotspots, particularly for birds and mammals. However, the patterns and underlying processes of bird and mammal diversity remain insufficiently studied in the montane forests of eastern China. This study employed infrared-triggered camera trapping to conduct a four-year field monitoring of birds and mammals, analyzing the effects of plant diversity and seasonal variations on the diversity of habitat-associated animals. Our results revealed that species-level habitat visit frequency in ground-dwelling birds exhibited a significant phylogenetic signal, particularly in spring and summer. Plant diversity metrics demonstrated significant positive correlations with corresponding bird metrics of species richness (SR), phylogenetic diversity (PD), and the standardized effect size of PD (Phylo SES PD). In contrast, for mammals, plant diversity metrics were significantly positively correlated with corresponding SR, mean pairwise phylogenetic distance (Phylo MPD), and mean nearest phylogenetic taxon distance (Phylo MNTD), as well as community structure metrics, including the net relatedness index (Phylo NRI) and nearest taxon index (Phylo NTI). Furthermore, the plant Shannon–Wiener index showed significant positive correlations with both bird and mammal metrics of SR, PD, and Phylo SES PD but significant negative correlations with Phylo MNTD. Seasonal variations triggered the mean altitudinal migration in ground-dwelling birds and mammals. There were significant differences in the diversity and community structure metrics of birds (Shannon–Wiener, Funct FNND, and PD) and mammals (Shannon–Wiener, Funct MPD, Funct FNND, PD, Phylo MPD, Phylo MNTD, and Phylo SES PD), which varied across different seasons. These findings emphasize that plant diversity and seasonal changes are closely related to the diversity and community structure of birds and mammals. They provide theoretical support for the role of habitat vegetation and seasonal dynamics in maintaining the stability and functioning of montane animal ecosystems, offering important insights for addressing habitat fragmentation and species migratory behavior. Full article

Actinidia deliciosa is a globally important economic fruit crop, and its fruit quality and yield are profoundly influenced by light and environmental conditions. Sucrose phosphate synthase (SPS), a key rate-limiting enzyme in the sucrose biosynthesis pathway, plays a central role in regulating carbon metabolism and sucrose accumulation in plants. However, comprehensive studies of the SPS gene family in A. deliciosa are still lacking, particularly regarding its expression in response to different light qualities. In this study, genome-wide identification of the SPS gene family in A. deliciosa was conducted using bioinformatics approaches. A total of 31 SPS genes were identified and named AdSPS1 to AdSPS31 on the basis of their chromosomal positions. The encoded proteins were predicted to be acidic, hydrophilic, and primarily localized in the chloroplast. All the AdSPS proteins contained the conserved domains Sucrose_synth, Glyco_trans_1, and S6PP, indicating potential roles in sucrose metabolism. Phylogenetic analysis classified the 31 AdSPS members into three subfamilies, A, B, and C, comprising 20, 5, and 6 members, respectively. Collinearity analysis revealed extensive syntenic relationships among AdSPS genes across different chromosomes, suggesting that gene duplication events contributed to the expansion of this gene family. Promoter cis-acting element analysis revealed that light-responsive elements were the most abundant among all the detected elements in the upstream regions of the AdSPS genes, implying potential regulation by light signals. Different light qualities significantly affected the contents of sucrose, glucose, and fructose, as well as SPS activity in kiwifruit leaves, with the highest activity observed under the R3B1 (red–blue light 3:1) treatment. Spearman’s correlation analysis indicated that AdSPS3 was significantly negatively correlated with sucrose, fructose, glucose, and SPS activity, suggesting a potential role in negatively regulating sugar accumulation in kiwifruit leaves, whereas AdSPS12 showed positive correlations with these parameters, implying a role in promoting sucrose synthesis. To further explore the light response of the AdSPS genes, eight representative members were selected for qRT‒PCR analysis under red light, blue light, and combined red‒blue light treatments. These results demonstrated that light quality significantly influenced SPS gene expression. Specifically, AdSPS6 and AdSPS24 were highly responsive to R1B1 (1:1 red‒blue light), AdSPS9 was significantly upregulated under R6B1 (6:1 red‒blue light), AdSPS21 was strongly induced by blue light, and AdSPS12 expression was suppressed. This study systematically identified and analyzed the SPS gene family in A. deliciosa, revealing its structural characteristics and light-responsive expression patterns. These findings suggest that AdSPS genes may play important roles in light-regulated carbon metabolism. These results provide a theoretical foundation and valuable genetic resources for further elucidating the molecular mechanisms of sucrose metabolism and light signal transduction in kiwifruit. Full article

Rice (Oryza sativa L.) is a major global staple crop, yet its productivity is severely constrained by rice blast disease caused by Magnaporthe oryzae. FK506-binding proteins (FKBPs) are peptidyl-prolyl cis-trans isomerases involved in protein folding, stress response, and signaling regulation, but their roles in rice blast resistance remain unclear. In this study, we performed a comprehensive identification and characterization of FKBP gene family members in two rice cultivars, Nipponbare (NIP) and Zhonghua 11 (ZH11), based on the latest T2T (telomere-to-telomere) genome assembly of ZH11 and the reference genome of NIP. A total of 24 and 29 FKBP genes were detected in NIP and ZH11, respectively, indicating a slight expansion in ZH11. Phylogenetic and collinearity analyses revealed strong conservation of FKBP family members between the two cultivars, while several ZH11-specific genes likely resulted from recent duplication events. Promoter analysis showed that FKBP genes are enriched in stress and hormone responsive cis-elements, particularly those related to ABA, MeJA, and SA signaling. Transcriptomic and RT-qPCR analyses demonstrated that multiple FKBP genes were significantly regulated during M. oryzae infection, suggesting their potential involvement in defense signaling pathways. This study provides a comprehensive overview of FKBP gene family evolution and expression in rice, identifies candidate genes potentially associated with blast resistance, and offers valuable insights for molecular breeding aimed at improving disease resistance in rice. Full article

RhoA (Ras homolog A) is a prominent member of the Rho GTPase family, playing a key role in various cellular processes such as cytoskeletal dynamics, cell migration, and immune responses. However, its function in red swamp crayfish remains unclear. In this study, it is proposed that RhoA may regulate the innate immune response in P. clarkii. The gene was fully characterized as PcRhoA in P. clarkii. The results showed that the open reading frame (ORF) of PcRhoA is 663 bp, encoding a 220-amino acid protein with a conserved Rho domain of 174 amino acids. Phylogenetic analysis placed PcRhoA close to Cherax quadricarinatus RhoA. RT-qPCR analysis revealed high expression levels of the PcRhoA gene in the hepatopancreas, muscle, heart, ovary, and stomach, with lower expression in the blood, intestine, gills, and tentacle gland. Furthermore, PcRhoA mRNA transcript was significantly upregulated in the intestine following LPS and Poly I:C challenges. Knockdown of PcRhoA suppressed the expression of downstream genes in the immune signaling pathway. These results indicate that PcRhoA appears to play a pivotal role in regulating the immune response of crayfish. Full article

The Gretchen Hagen 3 (GH3) gene family, a key component of the early auxin-responsive gene family, plays a pivotal role in regulating plant growth, development, and stress responses. However, to date, a comprehensive genome-wide analysis of the GH3 gene family and its potential role in plant defense against viruses, such as tomato yellow leaf curl virus (TYLCV), has not been conducted in Nicotiana benthamiana. Here, the GH3 gene family was thoroughly examined in N. benthamiana using a comprehensive genome-wide bioinformatic approach. A total of 25 potential GH3 genes were discovered in N. benthamiana. Phylogenetic analysis classified these NbGH3s into three different clades. Chromosomal distribution and synteny analyses revealed that NbGH3s are unevenly distributed across 14 chromosomes, with 20 segmental and one tandem duplication pairs. Promoter analysis suggested their involvement in phytohormone signaling and stress responses. Quantitative PCR showed that several NbGH3s are transcriptionally responsive to TYLCV infection, with five of them significantly upregulated in infected leaves. Furthermore, virus-induced gene silencing revealed that the suppression of NbGH3-3 and NbGH3-9 markedly increased host susceptibility to TYLCV, underscoring their critical roles in plant antiviral defense mechanisms. This research establishes a framework for understanding the functions of NbGH3s in plant growth and their response to TYLCV infection. Full article

To systematically investigate how the olfactory system of Bombus terrestris adapts to its social division of labor and reproductive strategies, this study integrated the micromorphology of antennal sensilla and the expression profiles of olfactory receptor (OR) genes from the heads of its three castes (workers, drones, and queens) for a multi-level analysis. Scanning electron microscopy (SEM) revealed that drones possess significantly longer chaetic sensilla (Sch), sensilla trichodea (Str A/B), and sensilla basiconica (Sba A), as well as larger-diameter sensilla coeloconica (Sco) compared to workers and queens, indicating structural and functional specialization for sensitive detection of single key signals (e.g., queen pheromones). In contrast, workers and queens exhibited a more complete composition of sensilla types and a higher sensilla distribution density, suggesting the construction of a perceptual system capable of processing multiple chemical signals simultaneously. RNA-seq combined with qRT-PCR confirmed the significant upregulation of seven OR genes (e.g., BterOR3, BterOR4) in drones, while workers showed upregulation of BterOR3/5/7 accompanied by enrichment of P450 detoxification pathways. Phylogenetic analysis suggested that BterOR5 serves as a conserved co-receptor, and some OR genes may originate from recent duplication events. In summary, distinct differences were observed in the morphological structure and molecular expression of the olfactory system among B. terrestris castes. Drones exhibited structural and gene expression features consistent with specialization in queen pheromone detection, while workers and queens demonstrated sensilla diversity and olfactory receptor expression patterns indicative of a broader response capacity to diverse chemical signals. These findings support the view that the olfactory system has undergone multi-level adaptive evolution driven by social division of labor and reproductive roles. Full article

The calmodulin-binding protein 60 (CBP60) family comprises essential Ca²⁺-responsive transcription factors that orchestrate salicylic acid (SA)-mediated immunity and broader stress responses. Despite being extensively characterized in model species, the CBP60 family remains poorly understood in watermelon (Citrullus lanatus), a globally significant cucurbit crop highly susceptible to aphid infestation and fusarium wilt. In this study, we performed a comprehensive genome-wide identification and characterization of the CBP60 gene family in watermelon, identifying 16 putative ClaCBP60 members, all of which harbor the conserved calmodulin-binding domain. These genes are non-randomly distributed across chromosomes, featuring a prominent cluster of 10 members on chromosome 3. Phylogenetic analysis across seven cucurbit species categorized the CBP60 proteins into four distinct subfamilies, revealing both evolutionary conservation and lineage-specific diversification. Gene structure and conserved motif analyses revealed shared core domains with subfamily-specific variations, indicative of functional divergence. Furthermore, synteny analysis showed strong collinearity with cucumber and melon, reflecting the evolutionary stability of key CBP60 loci. Transcriptional profiling under F. oxysporum infection and aphid infestation revealed dynamic expression patterns, with ClaCBP60_01 and ClaCBP60_16 exhibiting rapid and robust induction during the early stages of both stresses. These findings indicated that ClaCBP60 genes operate in a coordinated yet diversified manner to modulate defense signaling against F. oxysporum and aphid attack. This study provides a systematic insight into CBP60 family members in watermelon, establishing a foundation for validation and molecular breeding aimed at enhancing biotic tolerance. Full article

Temperature strongly influences physiological processes in ectotherms, including digestion, yet its effects on digestive enzyme activity remain poorly understood. We examined the temperature dependence of digestive performance in eight Mediterranean wall lizard species (Podarcis spp.) from mainland and island populations. Under controlled laboratory conditions, we measured the activity of three key enzymes, protease, lipase, and maltase, across a temperature gradient (20–55 °C), alongside gastrointestinal (GI) morphology. Enzyme activity generally increased with temperature up to 50 °C and declined thereafter, reflecting typical thermal kinetics. Lipase activity was consistently higher in island species, while protease and maltase showed no significant geographic or phylogenetic trends. Island lizards also exhibited longer and heavier GI tracts relative to body size (SVL), suggesting enhanced nutrient absorption capacity. Phylogenetic signal analyses (Pagel’s λ and Abouheif’s C_mean) revealed no significant evolutionary constraints on digestive traits, indicating that observed differences reflect ecological adaptation rather than ancestry. Overall, island species appear to have evolved digestive traits that improve energy extraction under resource-limited conditions, but may be more sensitive to extreme heat. These findings highlight contrasting adaptive strategies between island and mainland reptiles and underscore the importance of digestive physiology in predicting the response of species to warming climates. Full article

Serine proteases represent a significant family of proteolytic enzymes, characterized by their serine-dependent catalytic mechanism. These enzymes are integral to various biological processes, including fungal growth, development, and pathogenicity. Despite their importance, the sequence characterization and expression patterns of this protein family in Setosphaeria turcica are not yet fully characterized and remain underexplored. A total of 74 putative serine protease family proteins (StSPs) were identified in S. turcica and classified into 12 subfamilies based on phylogenetic analysis. Structural domain analysis revealed that 24 StSPs contain signal peptides, of which five were experimentally validated as secretory proteins through yeast secretion assays. Expression profiling using RNA-seq data demonstrated that StSPs exhibit distinct expression patterns across different developmental and infection stages, with 61 genes showing high expression during critical infection phases. The expression levels of nine genes were validated via qRT-PCR, and the results were consistent with the RNA-seq data. Among these proteins, StSP8-4 demonstrated elevated expression during the course of fungal infection. Functional characterization of StSP8-4 OE and RNAi strains revealed that this gene plays a crucial role in maintaining fungal pathogenicity, although silencing did not impair conidium or hyphal development. These findings provide valuable insights for further research on serine protease genes in S. turcica. Full article

Auxin plays a crucial role in plant growth and development via concentration gradient regulation, with auxin response factors (ARFs) as key transcription factors in its signalling pathway. However, comprehensive identification and characterisation of ARF genes in Salicaceae remain limited. This study performed a genome-wide analysis of ARF genes in three Salicaceae species (Populus euphratica Oliv., Populus pruinosa, and Salix sinopurpurea), aiming to clarify their physicochemical properties, evolutionary relationships, and functional relevance. A total of 34 ARF genes were identified in each species, all being nucleus-localised hydrophilic unstable proteins clustered into six phylogenetic subgroups. Their promoters contain numerous cis-acting elements responsive to light, phytohormones, and stresses. Transcriptome and qRT-PCR data showed significant up-regulation of PeARF18 in ovate/broad-ovate leaves of P. euphratica compared to linear/lanceolate leaves. This study provides preliminary insights into the characterisation and potential role of the Salicaceae ARF gene family, laying a foundation for further functional exploration of PeARF18 in P. euphratica leaf shape development. Full article

Jasmonate-ZIM domain (JAZ) proteins act as repressors in the jasmonic acid (JA) signaling pathway and also function as plant-specific proteins participating in plant growth and development, stress response, and defense. In our study, a total of 25 JAZ genes were identified in B. rapa based on their conserved domains. First, the primary characteristics were surveyed, including the lengths of the CDS and proteins, molecular weights, and isoelectric points. Next, a phylogenetic tree of JAZ proteins among B. rapa, A. thaliana, O. sativa, B. oleracea, and B. napus was constructed, which revealed that these proteins cluster into four groups based on sequence homology rather than by species. Synteny analysis of JAZ genes among these species demonstrated that the highest number of collinear pairs was found between B. rapa and B. napus. Most BrJAZ genes were highly expressed in root, stem, and leaf. Moreover, the expression levels of BrJAZ1a and BrJAZ6b were induced by drought, high salt, black rot, and MeJA. Over-expressed these genes in A. thaliana lines enhanced their tolerance to drought and high salt stress, which was associated with higher enzymatic activities of SOD and POD. Both BrJAZ1a-GFP and BrJAZ6b-GFP were localized in the nucleus. Full article

A new class of plant phosphotransfer proteins belonging to the multistep phosphorelay (MSP) system implicated in phytohormone cytokinin signaling was discovered based on large-scale bioinformatics methods. Unlike the canonical soluble nucleo-cytosolic forms, these proteins were predicted to have transmembrane (TM) domains and, apparently, should be localized on some kind of cell membrane. To date, 94 predicted TM-containing phosphotransmitter (TM-HPt) homologs were found in 62 plant species belonging to different clades, taxa, and groups of embryophytes: bryophytes, gymnosperms, and mono- and dicotyledons. The conserved HPt motif with phosphorylatable histidine was preserved in most of the TM-HPts under study, which allowed us to consider these proteins potentially active in MSP signaling. For the identified TM-HPts, a Bayesian analysis at the DNA level was performed, and a relevant phylogenetic tree was constructed. According to evolutionary relationships, plant TM-HPts were divided into two main groups corresponding to Arabidopsis AHP1-3,5,6, and AHP4 orthologs. Transcriptomic analysis confirmed the expression of most of the investigated TM-HPt-encoding genes. Their moderate-to-low overall transcription rate may be a consequence of inducible and/or tissue-specific expression. Using molecular modeling methods, a variety of potential spatial organizations of several such proteins are demonstrated. The ability of the uncovered TM domains to tether HPts to membranes was supported by molecular dynamic simulation. Possible roles of TM-HPts as modulators of the MSP signaling pathway and corresponding putative mechanisms of their action are suggested. Full article

12-oxo-phytodienoic acid reductase (OPR) is a core component of the jasmonic acid (JA) biosynthetic pathway and participates in JA synthesis by catalyzing the reduction in the precursor 12-oxo-phytodienoic acid (OPDA), as well as broadly regulating plant development, stress response, and hormone signaling networks. This study analyzed the OPR gene family using 28 soybean genomes. A total of 15 OPR gene family members in soybean were identified, including 14 core genes and one variable gene. Analysis of gene duplication types showed that whole-genome duplication (WGD)/segmental duplication was the main mode of duplication in GmOPRs. The phylogenetic tree constructed from multiple species showed that the OPRs in subgroup VII were functionally important OPR genes and that the OPRs underwent Leguminosae and Cruciferae divergence, and large-scale duplication occurred in Leguminosae. Analysis of natural selection pressures on 28 soybean accessions indicated that the overall evolutionary pressures on GmOPRs were dominated by purifying selection, but there were also potential positive selection signals. Analysis of cis-acting elements revealed a large number of light- and hormone-responsive cis-acting elements in the GmOPRs. Some specific cis-acting elements were only present in a few genes or accessions. The protein interaction network consisted of 12 GmOPR proteins, 4 allene oxide synthase (AOS) proteins, and 6 allene oxide cyclase (AOC) proteins, where AOCs interact with GmOPRs and AOSs. Tissue transcriptome expression profiling showed that GmOPR3, GmOPR7, and GmOPR15 were specifically expressed in roots, whereas GmOPR2, GmOPR10, and GmOPR14 were specifically expressed in leaves, suggesting that these genes play an important role in the growth and development of the tissues. Moreover, GmOPRs usually responded to salt stress, and GmOPR3, GmOPR8, GmOPR9, GmOPR10, and GmOPR11 were significantly up-regulated in roots and leaves under salt stress. This suggests that these genes may be involved in biological processes such as osmoregulation, ion homeostasis, and scavenging of reactive oxygen species, thus helping soybeans to resist salt stress. This study comprehensively analyzed the OPR gene family in soybean based on the 28 soybean accessions and clarified the salt stress response pattern, which provides a new and more effective and reliable way to analyze the soybean gene family. Full article

Elephant grass (Cenchrus purpureus) is a globally important C4 perennial forage crop valued for its high biomass yield and tolerance to heat and drought. However, its poor cold tolerance severely limits its cultivation in temperate regions. The bZIP (basic region-leucine zipper) transcription factors are known to regulate abiotic stress responses; however, their role in elephant grass’s cold response is unclear. This study aimed to identify and characterize the CpbZIP gene family on a genome-wide scale and analyze its expression patterns under low-temperature stress. Through phylogenetic analysis, we classified 158 putative CpbZIP genes into 13 subgroups, a classification supported by conserved gene structures and motifs. The family expanded primarily through segmental duplication and has been shaped by strong purifying selection. Promoter analysis revealed numerous cis-acting elements associated with hormone signaling and abiotic stress, including low temperature, suggesting the family’s potential role in stress adaptation. Subsequent expression analysis and RT-qPCR validation identified six cold-induced genes. Of these, CpbZIP38 and CpbZIP86 exhibited high basal expression in roots and were significantly upregulated under cold stress. These findings identify promising candidate genes for the cold tolerance regulatory network in elephant grass and lay the groundwork for breeding cold-tolerant varieties. Full article

The floral morphology of Rosa chinensis significantly influences its ornamental value. However, the molecular mechanisms underlying specific floral types remain poorly understood. Viridiflora, a stable genetic variant of R. chinensis, exhibits homeotic transformation of floral organs into sepal-like structures, providing a valuable model for studying floral organ identity and development. In this study, Viridiflora was compared with Old Blush to elucidate floral development through morphological observation, transcriptomic profiling, and functional genetics. Four distinct developmental stages were defined, encompassing the formation of sepal, petal, stamen, and pistil primordia. Transcriptome analysis identified candidate genes associated with the Viridiflora phenotype, among which RcAGAMOUS2 (RcAG2) and RcFRUITFULL (RcFUL) were selected for in-depth functional characterization. The proteins encoded by these two genes are hydrophilic, lack signal peptides and transmembrane domains, and contain multiple phosphorylation sites. They feature typical MADS-box family domains and show close phylogenetic affinity to Rosa rugosa. Subcellular localization showed their nuclear presence. Heterologous overexpression of RcAG2 and RcFUL in Arabidopsis resulted in notable phenotypic alterations: RcAG2 caused petal reduction and stamen exposure, while RcFUL led to greenish, leaf-like petals with pigmentation gradients, increased sepal number, and failed seed set. Conclusion: These results suggest that RcAG2 and RcFUL play key roles in floral organ development through genetic regulation, providing a theoretical foundation for further research on floral development in R. chinensis. Full article