Search Results (78)

The bZIP gene family play a crucial role in plant growth, development, and stress responses, functioning as transcription factors. While this gene family has been studied in several plant species, its roles in the endangered woody plant Phoebe bournei remain largely unclear. This study comprehensively analyzed the PbbZIP gene family in P. bournei, identifying 71 PbbZIP genes distributed across all 12 chromosomes. The amino acid count in these genes ranged from 74 to 839, with molecular weights varying from 8813.28 Da to 88,864.94 Da. Phylogenetic analysis categorized the PbbZIP genes into 12 subfamilies (A-K, S). Interspecific collinearity analysis revealed homologous PbbZIP genes between P. bournei and Arabidopsis thaliana. A promoter cis-acting element analysis indicated that PbbZIP genes contain various elements responsive to plant hormones, stress signals, and light. Additionally, expression analysis of public RNA-seq data showed that PbbZIP genes are distributed across multiple tissues, exhibiting distinct expression patterns specific to root bark, root xylem, stem bark, stem xylem, and leaves. We also performed qRT-PCR analysis on five representative PbbZIP genes (PbbZIP14, PbbZIP26, PbbZIP32, PbbZIP67, and PbbZIP69). The results demonstrated significant differences in the expression of PbbZIP genes under various abiotic stress conditions, including salt stress, heat, and drought. Notably, PbbZIP67 and PbbZIP69 exhibited robust responses under salt or heat stress conditions. This study confirmed the roles of the PbbZIP gene family in responding to various abiotic stresses, thereby providing insights into its functions in plant growth, development, and stress adaptation. The findings lay a foundation for future research on breeding and enhancing stress resistance in P. bournei. Full article

The Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES) is a conservation and trade convention regulating international trade in wild species listed under its various appendices. Party nations are required to have designated scientific and management authorities to administer CITES and, ideally, domestic enabling legislation for proper implementation. However, the complexity of the convention makes it difficult to implement in resource-constrained nations that lack expertise and commitment. Apart from the lack of resources and expertise in much of the global south, hurdles to CITES implementation arise from delays in the formation of necessary legislation, apathy in enforcing the legislation, and the gatekeeping of resources by leading government agencies. Nepal has a long and well-documented history of wildlife conservation and is party to most major global environmental conventions, although it has frequently lacked the ability to implement them fully. Recently, Nepal has formulated domestic policies and developed institutions supporting biodiversity conservation but still refrains from formulating and implementing some provisions. After a long history of only partial (at best) compliance, Nepal enacted domestic CITES-implementing legislation, the CITES Act of 2017, with progressive provisions for enforcement, wildlife farming, and resource utilization and conservation. Here, we used a mixed methods research approach involving published and gray literature reviews and key informant interviews with concerned stakeholders to understand the workings and modality of authorities under the 2017 Act. We explore its nuances and discuss potential challenges for its implementation over time. Though the new policy has many positive aspects in that it is progressive in shifting away from more classical, strict protection, we found that there are still shortcomings within national administrative structures and a lack of policy that coordinates and informs different government offices of their responsibilities and how they interface under the current federal system. This has resulted in ongoing obstacles to achieving fuller CITES implementation to date and, in some cases, also inhibits sustainable uses of biodiversity. Full article

Butterflies are charismatic insects that are critical pollinators for plants that humans and wildlife depend on; however, butterflies have some of the largest measured declines. Two iconic butterflies in the USA, the Regal Fritillary (Argynnis idalia) and the Monarch (Danaus plexippus), are proposed for protection due to decreasing numbers from overexploitation, agricultural activities, disease and development. We surveyed 145 sites and walked 557 km from mid-June to August in 2019 and 2021 to create baseline information for butterflies and fill in knowledge gaps for these species. We observed 16,986 individuals and identified 52 species of butterflies. Generally, butterflies were more abundant at lower wind speeds and in areas with higher forb cover and less bare ground. We identified more species in locations with taller grass, higher bloom densities, higher cover of forbs, and less bare ground. We observed 11 Regal Fritillaries and 31 Monarchs extending from northeastern to southeastern Wyoming in a variety of habitats. The predicted suitable habitat of Regal Fritillaries and Monarchs was highly influenced by sagebrush cover and mean temperature of the wettest quarter according to species distribution models. Our results provide information to managers about the status, distribution, and habitat use of butterflies in a previously un-surveyed area. Historical butterfly surveys were limited to mountain ecosystems, and we provide baseline information on the habitat characteristics that support the highest abundances and most species in prairie ecosystems that can be compared to future efforts. Full article

The CPP gene family comprises transcription factor genes containing a conserved CRC domain, which is mainly involved in plant development and evolution. Although CPP genes have been widely studied in many plants, little is known about them in woody plants, especially in the endangered species Phoebe bournei (Hemsl.). In the genome of Phoebe bournei, we identified 11 PbCPP genes (PbCPP1-PbCPP11) distributed on four chromosomes, with large differences in the number of amino acids. They encode both acidic and alkaline proteins. A phylogenetic analysis showed that these PbCPP genes can be divided into three subfamilies, A, B, and C, which contain seven, two, and two genes, respectively. Through an interspecific collinearity analysis, we identified homologous PbCPP genes. A promoter cis-acting element analysis revealed that PbCPPs contain a variety of elements that respond to plant hormones, stress signals, and light and play a role in growth and development, and most PbCPP genes (except PbCPP3 and PbCPP8) contain MYB binding site elements that regulate drought-induced stress responses, indicating that they play an important role in plant drought resistance. An expression analysis showed that PbCPP3 and PbCPP4 expression was high in the roots and stems and lower in the leaves, whereas the expression of most of the other genes was low in the roots, stems, and leaves. In addition, six representative PbCPP genes were detected using qRT-PCR. The results show significant differences in the expression of PbCPP genes under abiotic stress conditions (drought, cold, and salt), indicating that they play an important role in stress responses. This study preliminarily verified the role of the PbCPP gene family in different abiotic stress responses, which is of great significance for understanding its mechanism in plant growth and development and stress adaptation. Full article

Scyphiphora hydrophyllacea is an endangered mangrove species in China. Over-exploitation and coastal development have drastically reduced its distribution and population, now limited to the Qingmei Port (Sanya) and the Qinglan Port (Wenchang). Despite its critical status, research on its ecological roles remains limited. This study examines the characteristics of S. hydrophyllacea communities and their relationship with soil properties. A total of 17 species from 11 families and 14 genera were recorded. TWINSPAN classification identified two distinct community types: the Qinglan Port community and the Qingmei Port community. Significant biodiversity differences were found only in the tree layer, with no differences in shrub or herbaceous layers. The importance value of S. hydrophyllacea within the arbor layer exhibited variability across the two communities, serving as an associated species in the Qinglan Port community and as a dominant species in the Qingmei Port community, suggesting potential barriers to its natural regeneration. Redundancy analysis (RDA) revealed that key soil factors influencing S. hydrophyllacea’s distribution include electrical conductivity (EC), total phosphorus (TP), total nitrogen (TN), soil organic content (SOC), and carbon/nitrogen ratio (C/N). We propose that high soil salinity and nitrogen deficiency may act as key factors limiting the natural regeneration of S. hydrophyllacea. Full article

Monitoring declining species is crucial to inform conservation but is challenging for rare species with limited information. The Western Bumble Bee (Bombus occidentalis) was previously common in the western United States but has drastically declined. Despite documented populations in the Intermountain West, many areas remain under-sampled. Species distribution models (SDM) can guide sampling efforts in large areas by predicting where the highest probability of suitable habitat may occur. We developed a sampling SDM using historical observations (1910–2010) in Wyoming to predict suitable habitat in the past. Using the model, we selected sampling sites that ranged from low to high predicted habitat suitability and we revisited historical locations where B. occidentalis were observed. Using all data (historical and current), we selected the predictors that explained the most variance, and created separate historical and current (2017–2018) SDM using the same variables to assess how predicted habitat suitability changed. We detected B. occidentalis at 30% of the revisited historical sites and 25% of all sites sampled. Areas predicted to be highly suitable for B. occidentalis in Wyoming declined by 5%; a small decrease compared to declines in the western portion of their range. Predicted habitat suitability increased the most in foothill areas. Creating SDM with landscape and climatic variables can bolster models and identify highly contributing variables. Regional SDM complement range-wide SDM by focusing on a portion of their range and assessing how predicted habitat changed. Full article

The objectives of our study were to analyse the degree of human pressure within the lowland river catchment in relation to the mollusc communities and to assess the usefulness of the River Habitat Survey as a field method in determining the human pressure in the mollusc biodiversity context. The River Habitat Survey (RHS), an essential method for hydromorphological studies of rivers under the requirements of the European Union Water Framework Directive, was applied. This study showed that the diversity of molluscs was impacted by several environmental factors acting simultaneously, including pH, concentration of ammonium nitrogen in water, and the habitat features depending on the degree of human pressure on the river. The result of the RHS method confirmed that the occurrence of molluscs including Unio crassus and Pseudanodonta complanata, the endangered species on a global scale, was associated with the extensive presence of several natural habitat features in the river channel. The RHS method proved to be an indispensable tool for assessing the relationships between the diversity of aquatic organisms and the degree of habitat anthropogenic modification of river environments. It seems innovative and necessary, especially in restoring the natural character of rivers. Full article

Lignocellulosic biomass (LCB) in the form of agricultural, forestry, and agro-industrial wastes is globally generated in large volumes every year. The chemical components of LCB render them a substrate valuable for biofuel production. It is hard to dissolve LCB resources for biofuel production because the lignin, cellulose, and hemicellulose parts stick together rigidly. This makes the structure complex, hierarchical, and resistant. Owing to these restrictions, the junk production of LCB waste has recently become a significant worldwide environmental problem resulting from inefficient disposal techniques and increased persistence. In addition, burning LCB waste, such as paddy straws, is a widespread practice that causes considerable air pollution and endangers the environment and human existence. Besides environmental pollution from LCB waste, increasing industrialization has resulted in the production of billions of tons of dyeing wastewater from several industries, including textiles, pharmaceuticals, tanneries, and food processing units. The massive use of synthetic dyes in various industries can be detrimental to the environment due to the recalcitrant aromatic structure of synthetic dyes, similar to the polymeric phenol lignin in LCB structure, and their persistent color. Synthetic dyes have been described as possessing carcinogenic and toxic properties that could be harmful to public health. Environmental pollution emanating from LCB wastes and dyeing wastewater is of great concern and should be carefully handled to mitigate its catastrophic effects. An effective strategy to curtail these problems is to learn from analogous systems in nature, such as termites, where woody lignocellulose is digested by wood-feeding termites and humus-recalcitrant aromatic compounds are decomposed by soil-feeding termites. The termite gut system acts as a unique bioresource consisting of distinct bacterial species valued for the processing of lignocellulosic materials and the degradation of synthetic dyes, which can be integrated into modern biorefineries for processing LCB waste and bioremediation applications for the treatment of dyeing wastewaters to help resolve environmental issues arising from LCB waste and dyeing wastewaters. This review paper provides a new strategy for efficient management of recalcitrant pollutants by exploring the potential application of termite gut bacteria in biorefinery and bioremediation processing. Full article

Davidia involucrata has an ancient origin, representing a remnant from the paleotropical flora that thrived during the Tertiary period. Altitudinal gradient acts as a natural testing ground for studying climate change, and research on the distribution patterns of microorganisms along altitudinal gradients is crucial in understanding the adaptability of D. involucrata to climate change. In our study, we examined sample sites ranging from 1600 to 2200 m in elevation, which are part of the primary habitat zone for Davidia involucrata within the Xuebaoding National Nature Reserve. In 2021, field surveys were conducted across four altitudinal gradients (1600 m, 1800 m, 2000 m and 2200 m) of the D. involucrata distribution in the nature reserve. The sampling plots were set in each altitudinal gradient, and three representative and healthy mature trees were selected as sample trees for each plot. Rhizosphere soils were used to test the soil stoichiometry characteristics and root zone microbial communities. Our findings indicated pronounced differences in soil total carbon (TC) and total phosphorus (TP) content and C:P and N:P ratios between the four altitude sites (p < 0.05). Analysis of the bacterial communities revealed higher richness (PD and Chao1 indexes) at ASL2000 and ASL2200 (high altitude) compared to ASL1600 and ASL2000 (low altitude) (p < 0.05). Non-metric multidimensional scaling analysis demonstrated a distinct clustering of bacterial communities between the high and low altitudes (p < 0.01). At the phylum level, Proteobacteria and Acidobacteria were predominant at high altitudes, while Actinobacteria and Chloroflexi dominated at low altitudes. The core microbiome, shared among all altitudes, comprised 377 genes. The analysis of differential abundance revealed notable disparities in the prevalence of certain bacterial genera with altitude, with Arthrobacter and Acidothermus experiencing the most pronounced shifts (p < 0.05). This confirmed that environmental factors significantly influenced bacterial community structure and abundance. Spearman’s rank correlations revealed that both Chao1 and PD indices were positively correlated with elevation, TC, and TN, with Chao1 showing stronger relationships. Both indices were negatively correlated with MAT, while only Chao1 exhibited a significant negative correlation with pH. Linear regression analysis further confirmed the significant associations between Chao1 index and elevation, TN, MAT, and pH. Furthermore, redundancy analysis demonstrated that altitude (ASL) and TN were the primary factors shaping soil bacterial community composition, explaining 21.32% and 30.70% of the variance, respectively. Altitude significantly influenced microbial community structure (p = 0.003). Distinct microbial taxa showed specific associations with environmental gradients, suggesting niche specialization in response to soil conditions. These findings suggest that altitude influences soil nutrient characteristics and microbial community composition in the D. involucrata habitat, offering insights into the ecological factors affecting this endangered species. Full article

In order to collect information on ichthyofauna of a deep-sea vulnerable marine ecosystem (VME) network along the Apulian margin (central Mediterranean Sea), two low-impact sampling tools were used in three VMEs characterized by cold-water corals (CWC), namely Bari Canyon (BC), off Monopoli (Mn), and off Santa Maria di Leuca (SML). Using an experimental longline, 53 deployments were carried out between a 314 and 650 m depth for a total of 217 fishing hours, whereas when using the baited lander MEMO (Marine Environment MOnitoring system), 31 deployments were carried out between 427 and 792 m, for a total of 223 h of video recordings. A total of 37 taxa were recorded, comprising 13 Chondrichthyes and 24 Osteichthyes. The similarities in species observed among the VMEs confirm the presence of a network of CWC-VMEs along the Apulian margin, whereas some differences detected are due to the different abundance of some species, such as Galeus melastomus, Helicolenus dactylopterus, and Phycis blennoides. The presence of commercial species, vulnerable/endangered cartilaginous fishes, and large and sexually mature individuals of G. melastomus, H. dactylopterus, and Pagellus bogaraveo in all the VMEs confirms that the network of CWC-VMEs along the Apulian margin can act as a network of refuge areas and an essential fish habitat (EFH) for species threatened by fishing activities. Full article

Phoebe bournei is a second-class endangered and protected species unique to China, and it holds significant ecological and economic value. DNA binding one zinc finger (Dof) transcription factors are plant-specific regulators. Numerous studies have demonstrated that Dof genes are involved in plant growth, development and responses to abiotic stress. In this study, we identified and analyzed 34 PbDof gene members at the whole-genome level. The results indicated that the 34 PbDof genes were unevenly distributed across 12 chromosomes. We utilized the Dof genes from Arabidopsis thaliana and P. bournei to construct a phylogenetic tree and categorized these genes into eight subgroups. In the collinearity analysis, there were 16 homologous gene pairs between AtDof and PbDof and nine homologous gene pairs between ZmDof and PbDof. We conducted a cis-acting element analysis and found that cis-acting elements involved in light response were the most abundant in PbDof genes. Through SSR site prediction, we analyzed that the evolution level of Dof genes is low. Additionally, we assessed the expression profiles of eight PbDof genes under high temperature, drought, and light stress using qRT-PCR. In particular, PbDof08 and PbDof16 are significantly upregulated under the three stresses. This study provides foundational information for PbDof genes and offers new insights for further research on the mechanism of Dof transcription factors responding to stress, as well as the adaptation of P. bournei to environmental changes. Full article

Freshwater mussels (order: Unionida) are highly imperiled globally and are increasingly the focus of captive propagation efforts to protect and restore wild populations. The Upper Tennessee River Basin (UTRB) in Virginia is a freshwater biodiversity hotspot hosting at least 45 of North America’s ~300 species of freshwater mussels, including 21 threatened and endangered species listed under the U.S. Endangered Species Act. Recent studies have documented that viruses and other microbes have contributed to freshwater mussel population declines in the UTRB. We conducted a multi-year longitudinal study of captive-reared hatchery mussels released to restoration sites throughout the UTRB to evaluate their viromes and compare them to captive hatchery environments. We documented 681 viruses from 27 families. The hatchery mussels had significantly less viruses than those deployed to wild sites, with only 20 viruses unique to the hatchery mussels. After the hatchery mussels were released into the wild, their number of viruses initially spiked and then increased steadily over time, with 451 viruses in total unique to the mussels in the wild. We found Clinch densovirus 1 (CDNV-1), a virus previously associated with mass mortality events in the Clinch River, in all samples, but the wild site mussels consistently had significantly higher CDNV-1 levels than those held in the hatchery. Our data document substantial differences between the viruses in the mussels in the hatchery and wild environments and rapid virome shifts after the mussels are released to the wild sites. These findings indicate that mussel release programs might benefit from acclimatization periods or other measures to mitigate the potential negative effects of rapid exposure to infectious agents found in natural environments. Full article

Hymenocallis henryae is a rare, charismatic spider lily endemic to the Florida panhandle. Currently under review to determine if listing under the Endangered Species Act is warranted, this species has undescribed genetic diversity, information crucial to the listing process. We conducted field observations of 21 historic populations across the species’ geographical range and performed genomic analyses of 279 individuals from 19 extant populations. Most populations had fewer than 40 individuals, while populations with >100 individuals were found exclusively on managed lands. Genetic diversity was uniformly low within populations (H_E: 0.074–0.093), with low to moderate inbreeding coefficients (F_IS: 0.068–0.431). Genetic differentiation was relatively low among most populations (F_ST: 0–0.098), although there was statistical support for isolation by distance. In addition, we found high genetic similarity and lack of population structure across the species range. Clonal propagation through fused bulbs is a common reproductive strategy. We confirmed current threats (habitat change, residential development, fire suppression) and identified several coastal populations threatened by sea level rise. It is recommended to continue with in situ protection and management as well as the establishment of ex situ living collections to preserve populations most at risk of extirpation from habitat loss and degradation. Full article

Arctomecon californica, the Las Vegas bear poppy, is a rare plant found only in the eastern Mojave Desert of North America. Because of recent declines in the populations of this endemic plant, conservationists are currently seeking protection for A. californica under the US Endangered Species Act. In this study, we investigated the natural history of A. californica and documented insect visitors potentially pollinating A. californica in Clark County, Nevada. We find that the populations of A. californica fluctuate from year to year, with many populations declining by over 90% from 2021 to 2022. The pollinator communities of A. californica also vary from year to year. In some years, specialist bees in the genus Perdita make up the majority of pollinators, while in other years, generalist bees like Apis mellifera and Hylaeus dominate. Furthermore, we confirm what previous work has suggested, that A. californica requires pollinators to set seed, yet not all insect visitors are good pollinators. This work provides useful natural history information about the Las Vegas bear poppy, which will be informative to conservationists designing strategies to protect this imperiled species. Full article

The BRI1 EMS suppressor 1(BES1) transcription factor is a crucial regulator in the signaling pathway of Brassinosteroid (BR) and plays an important role in plant growth and response to abiotic stress. Although the identification and functional validation of BES1 genes have been extensively explored in various plant species, the understanding of their role in woody plants—particularly the endangered species Phoebe bournei (Hemsl.) Yang—remains limited. In this study, we identified nine members of the BES1 gene family in the genome of P. bournei; these nine members were unevenly distributed across four chromosomes. In our further evolutionary analysis of PbBES1, we discovered that PbBES1 can be divided into three subfamilies (Class I, Class II, and Class IV) based on the evolutionary tree constructed with Arabidopsis thaliana, Oryza sativa, and Solanum lycopersicum. Each subfamily contains 2–5 PbBES1 genes. There were nine pairs of homologous BES1 genes in the synteny analysis of PbBES1 and AtBES1. Three segmental replication events and one pair of tandem duplication events were present among the PbBES1 family members. Additionally, we conducted promoter cis-acting element analysis and discovered that PbBES1 contains binding sites for plant growth and development, cell cycle regulation, and response to abiotic stress. PbBES1.2 is highly expressed in root bark, stem bark, root xylem, and stem xylem. PbBES1.3 was expressed in five tissues. Moreover, we examined the expression profiles of five representative PbBES1 genes under heat and drought stress. These experiments preliminarily verified their responsiveness and functional roles in mediating responses to abiotic stress. This study provides important clues to elucidate the functional characteristics of the BES1 gene family, and at the same time provides new insights and valuable information for the regulation of resistance in P. bournei. Full article