In the last decade, the phylogenetic relationships within the genus Triplophysa have become controversial, due to a lack of molecular data. The mitochondrial genome plays a vital role in the reconstruction of phylogenetic relationships and in revealing the molecular evolution of bony fishes. Herein, we obtained the complete mitogenome of Triplophysa bombifrons via HiFi reads of the Pacbio Sequel II system and DNBSEQ short-reads. We compared all available mitogenomes of the Triplophysa genus and reconstructed the phylogeny of Nemacheilidae, based on the mitogenomes, using maximum likelihood (ML) methods. The results show that the complete mitogenome sequence of T. bombifrons was circular and 16,568 bp in length, including 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA), 2 ribosomal RNA (rRNA), and a typical control region (D-loop). The most common start codons were ATG, except for cox1, and TAA/TAG were the stop codons for all PCGs. In total, 677 SNPs and 9 INDELs have been found by comparing the sequence divergence between this study and previous reports. Purity selection was found in all PCGs. Phylogeny was inferred by analyzing the 13 PCGs and the concatenated nucleotide sequences of 30 mitogenomes. The phylogenetic analyses based on the nucleotides of the 13 PCGs supported the assumption that the Triplophysa genus can be divided into 4 main clades and demonstrated that T. bombifrons and T. tenuis are closely related species for the first time. This study laid the foundation for further study on the mitogenome and phylogeny of Nemacheilidae fishes.

In order to resolve the long-standing controversy surrounding the relationships within the Triplophysa genus, we conducted an extensive analysis of the complete mitogenome of Triplophysa labiata using DNBSEQ short reads. Additionally, we reconstructed the phylogeny of the Nemacheilidae family using mitogenome data. By comparing all available mitogenomes within the Triplophysa genus, we gained valuable insights into its evolutionary history. Our findings revealed that the mitogenome sequence of T. labiata is circular, spanning a length of 16,573 bp. It encompasses 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNAs), 2 ribosomal RNAs (rRNAs), and a control region (D-loop). Among the PCGs, the start codon ATG was commonly observed, except in cox1, while the stop codons TAA/TAG/T were found in all PCGs. Furthermore, purifying selection was evident across all PCGs. Utilizing maximum likelihood (ML) methods, we employed the 13 PCGs and the concatenated nucleotide sequences of 30 Triplophysa mitogenomes to infer the phylogeny. Our results strongly supported the division of the Triplophysa genus into four primary clades. Notably, our study provides the first evidence of the close relationship between T. labiata and T. dorsalis. These findings serve as a significant foundation for future investigations into the mitogenomics and phylogeny of Nemacheilidae fishes, paving the way for further advancements in this field of research.

This study investigates the mechanisms of zooplankton community assembly and their relationship to environmental factors in high-latitude arid regions. We conducted seasonal sampling at four reservoirs in the upper Tarim River Basin from 2023 to 2024: Shangyou Reservoir (SY), Shengli Reservoir (SL), Duolang Reservoir (DL) and Xinjingzi Reservoir (XJZ). The zooplankton community was categorized into five functional groups based on the predominant species, with small crustacean filter feeders (SCF) in all reservoirs except XJZ, where a seasonal shift between rotifer collectors (RC) in the wet season and SCF in the dry season was observed. Pearson correlation and canonical correspondence analysis (CCA) revealed that interspecific competition, pH, conductivity (COND), and salinity (SALIN) were the main determinants of zooplankton community composition. Significant correlations (p < 0.05) were detected among functional groups RC (rotifers carnivora), RF (rotifers filter feeders), SCF (small copepods and claocera filter feeders), and MCC (middle copepods and claocera carnivora). Environmental factors showed significant spatial heterogeneity, while zooplankton biomass was positively correlated with pH and COND. Cluster similarity analyses indicated complex interactions between 29 zooplankton species, with RF identified as an important positive predictor for larger groups. The network of co-occurrences showed predominantly positive relationships, emphasizing the mutual facilitation between the species. Our results suggest that interspecific interactions have stronger effects on community structuring than environmental factors, with mutual facilitation emerging as an important survival strategy. This study provides important insights into the dynamics of zooplankton communities in dry reservoirs and establishes a framework for understanding ecological patterns and assembly mechanisms under drought conditions.

Triplophysa yarkandensis (Cypriniformes: Nemacheilidae), a rare endemic fish in the Tarim River Basin, Xinjiang, China, plays a pivotal role in maintaining the stability of plateau saline–alkaline aquatic ecosystems, yet its survival is increasingly threatened by habitat salinization. However, the multi-dimensional synergistic adaptation mechanisms linking its phenotypic variation, intestinal structure, and associated microbial communities to extreme saline–alkaline stress remain poorly understood. In this study, we innovatively integrated morphological/intestinal histological characterization, 16S rRNA gene sequencing, and microbial ecological analyses (co-occurrence networks and assembly processes) to systematically decode its adaptive strategies. Results revealed that T. yarkandensis exhibits a streamlined body shape, morphological variability, and elongated intestinal villi that may support locomotion and nutrient/ion uptake under osmotic stress. Its gut exerts a stringent selective filter, driving distinct differentiation between water and gut microbial communities—with gut-enriched core taxa (Aurantimicrobium and Aestuariivirga) and functional pathways (unsaturated fatty acid biosynthesis and ABC transporters) specialized for osmoregulation. Notably, the water microbial assembly is dominated by stochastic processes, while the gut assembly relies on host-driven deterministic selection, forming a habitat-specific adaptive pattern. These findings uncover the synergistic adaptation system of host phenotype and gut microbiota for survival in extreme saline–alkaline habitats, advancing our understanding of fish–microbe co-evolution in extreme ecosystems and providing critical theoretical support for the conservation of rare plateau fish, as well as guidance for the utilization of saline–alkaline water resources in aquaculture.

Hedinichthys yarkandensis (Day, 1877) has been highlighted in research and evaluated as a class II key protected aquatic wildlife in Xinjiang Uygur Autonomous Region. To enhance the study of fish resources in the Hotan River, further germplasm conservation of fishery resources specific to the Tarim River Basin should be carried out, and the development of the aquatic seed industry should be promoted. A total of 1275 H. yarkandensis individuals were collected from 2020–2021. Fish ecological methods were used to explore the population ecological characteristics and ecological habits of H. yarkandensis. We found that the age of H. yarkandensis ranged from one to seven based on lapillus otoliths, and two-plus individuals accounted for more. The age structure composition reveals stable genetic performance and good population fecundity. The fitting correlations of standard length and body weight reveal that H. yarkandensis in the Hotan River is a uniformly growing fish. The ratio of females to males is 0.87:1. The Fulton condition index of males was slightly higher than that of females due to individual miniaturization. The comparative study found that the growth parameters of the Hotan River population (L_∞ = 302.772, W_∞ = 310.8450, t₀ = −0.4608) were higher than those of the other groups. The feeding demand of H. yarkandensis in the Hotan River was guaranteed because the effect of human activities was small in the watershed area and the watershed ecosystem was more stable, which resulted in stable germplasm resources in the Hotan River population.

This study investigates the distribution patterns, interspecific relationships, and community stability mechanisms of phytoplankton functional groups, aiming to elucidate the ecological processes that drive phytoplankton communities in aquatic ecosystems of arid regions. We conducted seasonal sampling from 2023 to 2024 at four auxiliary reservoirs in the Tarim River Basin, namely Shangyou Reservoir (SY), Shengli Reservoir (SL), Duolang Reservoir (DL), and Xinjingzi Reservoir (XJZ). In recent years, researchers have grouped phytoplankton into functional groups based on their shared morphological, physiological, and ecological characteristics—with these three types of traits serving as the core criteria for distinguishing different functional groups. A total of 18 functional groups were identified from the phytoplankton collected across four seasons, among which eight (A, D, H1, L0, M, MP, P, and S1) are dominant. Redundancy Analysis (RDA) indicated that environmental factors such as pH, electrical conductivity (COND), and dissolved oxygen (DO) are key driving factors affecting phytoplankton functional groups. Interspecific association analysis showed that the phytoplankton communities in DL, SL, and XJZ reservoirs were dominated by positive associations, reflecting stable community structures that are less prone to drastic fluctuations under stable environmental conditions. In contrast, the SY Reservoir was dominated by negative associations, indicating that it is in the early stage of succession with an unstable community. This may be related to intense human disturbance to the reservoir and its role in replenishing the Tarim River, which leads to significant water level fluctuations. The results of the Chi-square test and Pearson correlation analysis showed consistent trends but also differences: constrained by the requirement for continuous normal distribution, Pearson correlation analysis identified more pairs of negative associations, reflecting its limitations in analysing clumped-distributed species. Random forest models further indicated that functional groups M, MP, L0, and S1 are the main positive drivers of interspecific relationships. Among them, the increase in S1 can promote the growth of functional groups dominated by Navicula sp. and Chroococcus sp. by reducing resource competition. Conversely, the expansion of functional group H1 inhibits other groups, which is related to its adaptive strategy of resisting photo-oxidation in eutrophic environments. This study reveals the patterns of interspecific interactions and stability mechanisms of phytoplankton functional groups in arid-region reservoirs, providing a scientific basis for the management and conservation of aquatic ecosystems in similar extreme environments.