State Key Laboratory of Plateau Ecology and Agriculture

Filamentous fungi play an important role in human health and industrial/agricultural production. With the increasing number of full genomes available for fungal species, the study of filamentous fungi has brought about a wider range of genetic manipulation opportunities. However, the utilization of traditional methods to study fungi is time consuming and laborious. Recent rapid progress and wide application of a versatile genome editing technology, i.e., the CRISPR (clustered regularly interspaced short palindromic repeat)-Cas9 (CRISPR-related nuclease 9) system, has revolutionized biological research and has many innovative applications in a wide range of fields showing great promise in research and application of filamentous fungi. In this review, we introduce the CRISPR/Cas9 genome editing technology focusing on its application in research of filamentous fungi and we discuss the general considerations of genome editing using CRISPR/Cas9 system illustrating vector construction, multiple editing strategies, technical consideration of different sizes of homology arms on genome editing efficiency, off-target effects, and different transformation methodologies. In addition, we discuss the challenges encountered using CRISPR/Cas9 technology and give the perspectives of future applications of CRISPR/Cas9 technology for basic research and practical application of filamentous fungi.

Shipping in China plays a global role, and has led worldwide maritime transportation for the last decade. However, without taking national or local port boundaries into account, it is impossible to determine the responsibility that each local authority has on emission controls, nor compare them with land-based emissions to determine the priority for controlling these emissions. In this study, we provide national- to port-level inventories for China. The results show that in 2013, the total emissions of CO, non-methane volatile organic compounds (NMVOCs), nitrogen oxides (NO _x ), particulate matter (PM), SO _2 and CO _2 were 0.0741 ± 0.0004 Tg∙yr ^−1 , 0.0691 ± 0.0004 Tg∙yr ^−1 , 1.91 ± 0.01 Tg∙yr ^−1 , 0.164 ± 0.001 Tg∙yr ^−1 , 1.30 ± 0.01 Tg∙yr ^−1 and 86.3 ± 0.3 Tg∙yr ^−1 in China, respectively. By providing high-resolution spatial distribution maps of these emissions, we identify three hotspots, centered on the Bohai Rim Area, the Yangtze River Delta and Pearl River Delta. These three hotspots account for 8% of the ocean area evaluated in this study, but contribute around 37% of total shipping emissions. Compared with on-road mobile source emissions, NO _x and PM emissions from ships are equivalent to about 34% and 29% of the total mobile vehicle emissions in China. Moreover, this study provides detailed emission inventories for 24 ports in the country, which also greatly contributes to our understanding of global shipping emissions, given that eight of these ports rank within the top twenty of the port league table. Several ports in China suffer emissions 12–147 times higher than those at Los Angeles port. The ports of Ningbo-Zhou Shan, Shanghai, Hong Kong and Dalian dominate the port-level inventories, with individual emissions accounting for 28%–31%, 10%–14%, 10%–12% and 8%–14% of total emissions, respectively.

BACKGROUND: Antibiotic resistome has been found to strongly interact with the core microbiota in the human gut, yet little is known about how antibiotic resistance genes (ARGs) correlate with certain microbes in large rivers that are regarded as "terrestrial gut." RESULTS: By creating the integral pattern for ARGs and antibiotic-resistant microbes in water and sediment along a 4300-km continuum of the Yangtze River, we found that human pathogen bacteria (HPB) share 13.4% and 5.9% of the ARG hosts in water and sediment but contribute 64% and 46% to the total number of planktonic and sedimentary ARGs, respectively. Moreover, the planktonic HPB harbored 79 ARG combinations that are dominated by "natural" supercarriers (e.g., Rheinheimera texasensis and Noviherbaspirillum sp. Root189) in river basins. CONCLUSIONS: We confirmed that terrestrial HPB are the major ARG hosts in the river, rather than conventional supercarriers (e.g., Enterococcus spp. and other fecal indicator bacteria) that prevail in the human gut. The discovery of HPB as natural supercarriers in a world's large river not only interprets the inconsistency between the spatial dissimilarities in ARGs and their hosts, but also highlights the top priority of controlling terrestrial HPB in the future ARG-related risk management of riverine ecosystems globally. Video Abstract.

Steroidal glycoalkaloids (SGAs) existing in most potato tissues are toxic to humans when the fresh weight is over 200 mg kg−1, and high SGAs content would also damage the quality of potato tubers. Sterol side chain reductase 2 (StSSR2) is a key enzyme in the biosynthetic of SGAs in potatoes. To reduce the concentration of SGAs in tetraploid cultivated potato (Solanum tuberosum L.), the gene StSSR2 was edited by the CRISPR/Cas9 system. A total number of 64 mutant lines were generated, and the mutation efficiency was 46%. The percentage of insertion was 6.25%, and the percentage of deletion was 93.75%. Compared to the wild-type (WT), the content of SGAs reduced significantly in the mutated potatoes. The lowest SGAs concentration was 54% of the WT level, which was recorded in the peels of line #360. In the tuber fleshes, the lowest SGAs were 66% of WT level, which was found in line #378. In the leaves, the lowest SGAs concentration was 44% of the WT level as found in lines #204 and #378. In a word, our results showed that the StSSR2 gene of tetraploid cultivated potato could be successfully edited by the CRISPR/Cas9 system to reduce toxic SGAs.

The isolated type of orofacial cleft, termed non-syndromic cleft lip with or without cleft palate (NSCL/P), is the second most common birth defect in China, with Asians having the highest incidence in the world. NSCL/P involves multiple genes and complex interactions between genetic and environmental factors, imposing difficulty for the genetic assessment of the unborn fetus carrying multiple NSCL/P-susceptible variants. Although genome-wide association studies (GWAS) have uncovered dozens of single nucleotide polymorphism (SNP) loci in different ethnic populations, the genetic diagnostic effectiveness of these SNPs requires further experimental validation in Chinese populations before a diagnostic panel or a predictive model covering multiple SNPs can be built. In this study, we collected blood samples from control and NSCL/P infants in Han and Uyghur Chinese populations to validate the diagnostic effectiveness of 43 candidate SNPs previously detected using GWAS. We then built predictive models with the validated SNPs using different machine learning algorithms and evaluated their prediction performance. Our results showed that logistic regression had the best performance for risk assessment according to the area under curve. Notably, defective variants in MTHFR and RBP4, two genes involved in folic acid and vitamin A biosynthesis, were found to have high contributions to NSCL/P incidence based on feature importance evaluation with logistic regression. This is consistent with the notion that folic acid and vitamin A are both essential nutritional supplements for pregnant women to reduce the risk of conceiving an NSCL/P baby. Moreover, we observed a lower predictive power in Uyghur than in Han cases, likely due to differences in genetic background between these two ethnic populations. Thus, our study highlights the urgency to generate the HapMap for Uyghur population and perform resequencing-based screening of Uyghur-specific NSCL/P markers.

Abstract Knowledge of the quantitative importance of moisture transport pathways of the Sanjiangyuan region (known as the “water tower” of China) can provide insights into the regional atmospheric branch of the hydrological cycle over the Sanjiangyuan region. A combined method with a clustering algorithm [Hierarchical Density-Based Spatial Clustering of Applications with Noise (HDBSCAN)] and a Lagrangian moisture source diagnostic is developed to identify the major moisture transport pathways and quantify their importance to three types of consecutive precipitation events—extreme precipitation (EP) events, moderate precipitation (MP) events, and extreme aridity (EA) events—for the Sanjiangyuan region during the rainy season (June–September 1960–2017). The results indicate that moisture paths from the northwest covering northwest China and central Asia (the N.W. pathway) and moisture paths from southern and southeastern China (the S.S. pathway) are stable moisture transport pathways during EP and MP events [importance (precipitation contribution in percentage): N.W. pathway, 18.4% (EP), 32.2% (MP); S.S. pathway, 25.9% (EP), 28.5% (MP)]. Affected by the western edge of a significant anticyclone anomaly centered around 35°N, 115°E, the moisture paths via the Bay of Bengal (the B.B. pathway) can reach the target region and become a supplementary moisture contributor (14.9%) to EP events. Moisture paths via the Arabian Sea and Indian peninsula (the A.I. pathway) are also active but the contributions are limited [4.9% (EP) and 5.6% (MP)]. For EA events, the fast-moving trajectories from farther western Asia (the F.W. pathway) play a dominant role and all major moisture pathways (F.W., N.W., and S.S. pathways) carry limited moisture to the target region.

Babesiosis is a tick-borne disease with global impact caused by parasites of the phylum Apicomplexa, genus Babesia. Typically, acute bovine babesiosis (BB) is characterized by fever, anemia, hemoglobinuria, and high mortality. Surviving animals remain persistently infected and become reservoirs for parasite transmission. Bovids in China can be infected by one or more Babesia species endemic to the country, including B. bovis, B. bigemina, B. orientalis, B. ovata, B. major, B. motasi, B. U sp. Kashi and B. venatorum. The latter may pose a zoonotic risk. Occurrence of this wide diversity of Babesia species in China may be due to a combination of favorable ecological factors, such as the presence of multiple tick vectors, including Rhipicephalus and Hyalomma, the coexistence of susceptible bovid species, such as domestic cattle, yaks, and water buffalo, and the lack of efficient measures of tick control. BB is currently widespread in several regions of the country and a limiting factor for cattle production. While some areas appear to have enzootic stability, others have considerable cattle mortality. Research is needed to devise solutions to the challenges posed by uncontrolled BB. Critical research gaps include risk assessment for cattle residing in endemic areas, understanding factors involved in endemic stability, evaluation of parasite diversity and pathogenicity of regional Babesia species, and estimation of whether and how BB should be controlled in China. Research should allow the design of comprehensive interventions to improve cattle production, diminish the risk of human infections, and increase the availability of affordable animal protein for human consumption in China and worldwide. In this review, we describe the current state of BB with reference to the diversity of hosts, vectors, and parasite species in China. We also discuss the unique risks and knowledge gaps that should be taken into consideration for future Babesia research and control strategies.

Objective: This study investigated the effects of 1,3-1,6 beta-glucan added to the diet of Haidong chicks reared under hypoxic conditions, to ascertain the growth performances, immunity and intestinal morphology changes. Methods: A total of 750 chicks were divided into five groups and fed diets containing 0.5g/kg, 1.0g/kg and 2.0g/kg 1,3-1,6 beta-glucan from yeast (G1, G2, G3, respectively), 0.2g/kg Taylor rhizomorph (T) and a control feed (C). Results: The body weight and body weight gain was higher in chicks fed 1,3-1,6 beta-glucan and Taylor rhizomorph than in control group. Feed conversion ratio significantly differed for G2 and G3 groups in comparison to control group. The relative weight of bursa was higher in G1, G2 and G3 groups. The white blood cells and lymphocytes were significantly increased in groups fed 1,3-1,6 beta-glucan. The IgG of serum peak appeared in the G3 group. The villous height of the duodenum was higher in 1,3-1,6 beta-glucan feed groups. In the jejunum, the villous height was higher in G2 and G3 groups and crypt depth for all the groups fed β-glucan;. At ileum level the villous height and crept depth was higher for groups G1, G2 and G3. Conclusion: The growth performance of Haidong chicks is improved when 10 and 20 g/kg 1,3-1,6 beta-glucan is included in the diet; hence, it is suggested to diet include 1,3-1,6 beta-glucan in poultry diet to reduce and replace the use of antibiotics.

Jerusalem artichoke ( Helianthus tuberosus L.) is widely cultivated in Northwest China, and it has become an emerging economic crop that is rapidly developing. Because of its elevated inulin content and high resistance, it is widely used in functional food, inulin processing, feed, and ecological management. In this study, Illumina sequencing technology was utilized to assemble and annotate the complete chloroplast genome sequences of Jerusalem artichoke. The total length was 151,431 bp, including four conserved regions: A pair of reverse repeat regions (IRa 24,568 bp and IRb 24,603 bp), a large single-copy region (83,981 bp), and a small single-copy region (18,279 bp). The genome had a total of 115 genes, with 19 present in the reverse direction in the IR region. A total of 36 simple sequence repeats (SSRs) were identified in the coding and non-coding regions, most of which were biased toward A/T bases. A total of 32 SSRs were distributed in the non-coding regions. A comparative analysis of the chloroplast genome sequence of the Jerusalem artichoke and other species of the composite family revealed that the chloroplast genome sequences of plants of the composite family were highly conserved. Differences were observed in 24 gene loci in the coding region, with the degree of differentiation of the ycf2 gene being the most obvious. A phylogenetic analysis showed that H. petiolaris subsp. fallax had the closest relationship with Jerusalem artichoke, both members of the Helianthus genus. Selective locus detection of the ycf2 gene in eight species of the composite family was performed to explore adaptive evolution traits of the ycf2 gene in Jerusalem artichoke. The results show that there are significant and extremely significant positive selection sites at the 1239N and 1518R loci, respectively, indicating that the ycf2 gene has been subject to adaptive evolution. Insights from our assessment of the complete chloroplast genome sequences of Jerusalem artichoke will aid in the in-depth study of the evolutionary relationship of the composite family and provide significant sequencing information for the genetic improvement of Jerusalem artichoke.

In the present study, AA was used to challenge bovine ovarian granulosa cells in vitro and the related parameters of cellular and molecular biology were measured. The results indicated that lower doses of AA increased survival of bovine granulosa cells whereas higher doses of AA suppressed survival. While lower doses of AA induced accumulation of lipid droplet in granulosa cells, the higher dose of AA inhibited lipid accumulation, and AA increased abundance of FABP3, CD36 and SLC27A1 mRNA. Higher doses of AA decreased the secretion of E2 and increased the secretion of P4 accompanied by down-regulation of the mRNA abundance of CYP19A1, FSHR, HSD3B1 and STAR in granulosa cells. The signaling pathways employed by AA in the stimulation of genes expression included both ERK1/2 and Akt. Together, AA specifically affects physiological features, gene expression levels and steroid hormone secretion, and thus altering the functionality of granulosa cells of cattle.

Rice (Oryza sativa L.) is a major cereal and staple food crop worldwide, and its growth and production are affected by several fungal and bacterial phytopathogens. Bacterial blight (BB) is one of the world’s most devastating rice diseases, caused by Xanthomonas oryzae pv. oryzae (Xoo). In the current study, Bacillus atrophaeus FA12 and B. cabrialesii FA26 were isolated from the rice rhizosphere and characterized as having broad-range antifungal and antibacterial activities against various phytopathogens, including Xoo. In addition, the selected strains were further evaluated for their potent rice growth promotion and suppression efficacy against BB under greenhouse conditions. The result shows that FA12 and FA26, applied as seed inoculants, significantly enhanced the vigor index of rice seedlings by 78.89% and 108.70%, respectively. Suppression efficacy against BB disease by FA12 and FA26 reached up to 59.74% and 54.70%, respectively, in pot experiments. Furthermore, MALDI-TOF MS analysis of selected strains revealed the masses ranged from m/z 1040 to 1540, representing that iturins and fengycin are the major antimicrobial compounds in the crude extracts, which might have beneficial roles in rice defence responses against BB. In conclusion, FA12 and FA26 possess broad-range antagonistic activity and have the capability to promote plant growth traits. More importantly, applying these strains has a high potential for implementing eco-friendly, cost-effective, and sustainable management practices for BB disease.

Quantitative real-time reverse-transcriptase PCR (qRT-PCR) has been frequently used for detecting gene expression. To obtain reliable results, selection of suitable reference genes is a fundamental and necessary step. Garlic ( Allium sativum ), a member from Alliaceae family, has been used both as a food flavoring and as a traditional medicine. In the present study, garlic plants were exposed to salt stress (200 mM NaCl) for 0, 1, 4 and 12 h, and garlic roots, bulbs, and leaves were harvested for subsequent analysis. The expression stability of eight candidate reference genes, eukaryotic translation initiation factor 4 α ( eIF-4α ), actin ( ACTIN ), tubulin β -7 ( TUB7 ), TAP42-interacting protein of 41 kDa ( TIP41 ), glyceraldehyde-3-phosphate dehydrogenase ( GAPDH ), SAND family protein ( SAND ), elongation factor 1 alpha ( EF -1 α ), and protein phosphatase 2A ( PP2A ) were evaluated by geNorm, NormFinder, and BestKeeper. All genes tested displayed variable expression profiles under salt stress. In the leaf and root group, ACTIN was the best reference gene for normalizing gene expression. In garlic clove, ACTIN and SAND were the least variable, and were suitable for gene expression studies under salt stress; these two genes also performed well in all samples tested. Based on our results, we recommend that it is essential to use specific reference genes in different situations to obtain accurate results. Using a combination of multiple stable reference genes, such as ACTIN and SAND , to normalize gene expression is encouraged. The results from the study will be beneficial for accurate determination of gene expression in garlic and other plants.

Salt stress decreases plant growth and is a major threat to crop yields worldwide. The present study aimed to alleviate salt stress in plants by inoculation with halophilic plant growth-promoting rhizobacteria (PGPR) isolated from an extreme environment in the Qinghai–Tibetan Plateau. Wheat plants inoculated with Bacillus halotolerans KKD1 showed increased seedling morphological parameters and physiological indexes. The expression of wheat genes directly involved in plant growth was upregulated in the presence of KKD1, as shown by real-time quantitative PCR (RT-qPCR) analysis. The metabolism of phytohormones, such as 6-benzylaminopurine and gibberellic acid were also enhanced. Mining of the KKD1 genome corroborated its potential plant growth promotion (PGP) and biocontrol properties. Moreover, KKD1 was able to support plant growth under salt stress by inducing a stress response in wheat by modulating phytohormone levels, regulating lipid peroxidation, accumulating betaine, and excluding Na + . In addition, KKD1 positively affected the soil nitrogen content, soil phosphorus content and soil pH. Our findings indicated that KKD1 is a promising candidate for encouraging wheat plant growth under saline conditions.

A feeding experiment was conducted to determine the effects of inoculating alfalfa silage with a ferulic acid esterase-producing inoculum on feed digestibility, rumen fermentation, antioxidant, and immunity status of lactating dairy goats. Twenty dairy goats were distributed into 2 experimental groups consisting of control diet (Lp MTD/1, including Lactobacillus plantarum MTD/1 inoculated silage) against diet containing silage treated with ferulic acid esterase-producing L. plantarum A1 (Lp A1). Alfalfa silage inoculated with a ferulic acid esterase-producing Lp A1 had better fermentation quality than the Lp MTD/1 inoculation. The application of Lp A1 improved silage antioxidant capacity as indicated by greater total antioxidant capacity (T-AOC), superoxide dismutase (SOD) and glutathion peroxidase (GSH-Px) activities in Lp A1 treated silage versus Lp MTD/1 treatment. Compared with Lp MTD/1 treated group, inoculation of silage with Lp A1 increased apparent total tract digestibility of dietary dry matter, organic matter and crude protein, and ruminal concentrations of total volatile fatty acids, acetate, propionate and isobutyrate as well. The results of current study also demonstrated improved antioxidant capacity and immune performance of dairy goats with Lp A1 inoculation. Feeding Lp A1-treated silage increased dairy goats' serum antioxidase activity, such as T-AOC, SOD, GSH-Px and catalase, and the serum concentration of immunoglobulin A, while decreased tumor necrosis factor α, interleukin (IL)-2 and IL-6. In addition, compared with Lp MTD/1, diet containing alfalfa silage inoculated with Lp A1 endowed dairy goats' milk with greater fat and protein contents, improved dairy goat milk quality without affecting feed efficiency.

The increase in massive data processing and computing in datacenters in recent years has resulted in the problem of severe energy consumption, which also leads to a significant carbon footprint and a negative impact on the environment. A growing number of IT companies with operating datacenters are adopting renewable energy as part of their energy supply to offset the consumption of brown energy. In this paper, we focused on a green datacenter using hybrid energy supply, leveraged the time flexibility of workloads in the datacenter, and proposed a thermal-aware workload management method to maximize the utilization of renewable energy sources, considering the power consumption of both computing devices and cooling devices at the same time. The critical knob of our approach was workload shifting, which scheduled more delay-tolerant workloads and allocated resources in the datacenter according to the availability of renewable energy supply and the variation of cooling temperature. In order to evaluate the performance of the proposed method, we conducted simulation experiments using the Cloudsim-plus tool. The results demonstrated that the proposed method could effectively reduce the consumption of brown energy while maximizing the utilization of green energy.

A composite particle with layered double hydroxide (LDH) was deposited onto the surface of the Mg2B2O5 whisker (MBW) using a co-precipitation method. Subsequently, dodecyl dihydrogen phosphate (DDP) was grafted onto the surface of the LDH-coated MBW to synthesize an inorganic–organic hybrid ([email protected]–DDP). The [email protected]–DDP was incorporated into epoxy resin (EP) to fabricate a composite, and its curing behavior, fire properties, and mechanical properties were assessed. The results revealed that the cure index value of the EP/[email protected]–DDP composite was between ΔT* and ΔH*, indicating an excellent cured state. Moreover, it exhibited good flame-retarding performance (LOI: 32.5%; UL94: V-1 rating; flame retardancy index: 1.57). The improved fire safety was attributed to the barrier function of MBW, the presence of metallic oxides generated from LDH, and the catalytic dehydration of phosphorus oxoacids produced during the decomposition of DDP. The PO radicals generated from DDP were capable of capturing HO and H radicals in the gaseous phase. Furthermore, the incorporation of [email protected]–DDP improved the mechanical properties of the EP. The results presented herein can be applied to developing a novel strategy for designing multifunctional flame retardants that can be used to decrease the fire risk of EP.

Accurate mid- and long-term runoff forecasting is of great significance for rational development and utilization of water resources in “Yellow River Headwater” region, where runoff in the headwater region contributes to nearly 35% of the total amount of the Yellow River basin. In this paper, the monthly runoff data of Tangnaihai station in “Yellow River Headwater” region are analyzed as case studies. This paper presents support vector regression model for mid- and long-term runoff forecasting, and analyzes the influence of support vector regression model's parameters on the runoff forecasting accuracy, and finally compared with Auto Regressive model (AR) and Radial basis function neural network (RBFNN). The results indicate that SVR showed the best performance and is proved to be competitive with the AR and RBFNN models in both stations. SVR methods provide a promising reliable methods of mid- and long-term runoff forecasting.

Abstract The Qinghai‐Tibet Plateau (QTP) plays a crucial role in regulating the climate and hydrology over Asia, and studies indicate that the QTP tends to be warm and humid as a whole. Although precipitation variability on the QTP has a great impact on floods, soil erosion, and droughts, it is poorly understood owing to sparse meteorological observations. This study has investigated the temporal variability of precipitation on the QTP and its surrounding areas on different time scales over the past 40 years using the standardized variability index (SVI) based on entropy as well as its changing trends. The results show that the variability of precipitation has different spatial patterns on different time scales. In general, the variability of both the precipitation days and amounts are low in the southeast and northwest corners of the plateau and high in the southwest and north. It was found that the number of light precipitation days in the high vegetation coverage area in the southeastern plateau decreased significantly, but increased greatly in the bare land and sparse vegetation coverage areas in the northern part of the plateau. Such changes are believed to be conducive for ecological restoration. Most importantly, in the southern foothills of the Himalayas, many light precipitation days have turned into moderate and heavy precipitation days, and a significant increase in annual precipitation has also been noted, which are likely to cause natural disasters considering the local topographical conditions, such as landslides and mudslides. Highlights In QTP, SVI ME in May is closer to summer mode, indicating monsoon beginning have advanced to May. Extreme precipitation significantly influences precipitation variability. Daily SVI AE decreases in grassland/barren/sparsely vegetated land, good for ecology. Light rain days increased in bare land/sparse vegetation areas, benefiting vegetation restoration. In southern Himalayas, light rain changed to moderate/heavy rain, leading to natural disasters.

Glucose-6-phosphate dehydrogenase (G6PDH or G6PD) functions in supply of NADPH, which is required for plant defense responses to stresses. However, whether G6PD functions in the abscisic acid (ABA) signaling pathway remains to be elucidated. In this study, we investigated the involvement of the cytosolic G6PD5 in the ABA signaling pathway in Arabidopsis. We characterized the Arabidopsis single null mutant g6pd5. Phenotypic analysis showed that the mutant is more sensitive to ABA during seed germination and root growth, whereas G6PD5-overexpressing plants are less sensitive to ABA compared to wild type (WT). Furthermore, ABA induces excessive accumulation of reactive oxygen species (ROS) in mutant seeds and seedlings. G6PD5 participates in the reduction of H2O2 to H2O in the ascorbate-glutathione cycle. In addition, we found that G6PD5 suppressed the expression of Abscisic Acid Insensitive 5 (ABI5), the major ABA signaling component in dormancy control. When G6PD5 was overexpressed, the ABA signaling pathway was inactivated. Consistently, G6PD5 negatively modulates ABA-blocked primary root growth in the meristem and elongation zones. Of note, the suppression of root elongation by ABA is triggered by the cell cycle B-type cyclin CYCB1. This study showed that G6PD5 is involved in the ABA-mediated seed germination and root growth by suppressing ABI5.

Gymnocypris przewalskii is the only high-land endemic teleost living in Qinghai Lake, the largest saline-alkaline lake in China. Its osmoregulatory physiology remains elusive due to a lack of precise identification of the response proteins. In the present study, DIA/SWATH was used to identify differentially expressed proteins (DEPs) under alkaline (pH = 10.1, carbonate buffer), saline (12‰, sodium chloride), and saline-alkaline [carbonate buffer (pH = 10.1) plus 11‰ sodium chloride] stresses. A total of 66,056 unique peptides representing 7,150 proteins and 230 DEPs [the false discovery rate (FDR) ≤ 0.05, fold change (FC) ≥ 1.5] were identified under different stresses. Comparative analyses of the proteome and transcriptome indicated that over 86% of DEPs did not show consistent trends with mRNA. In addition to consistent enrichment results under different stresses, the specific DEPs involved in saline-alkaline adaptation were primarily enriched in functions of homeostasis, hormone synthesis and reactions of defense response, complement activation and reproductive development. Meanwhile, a protein-protein interaction (PPI) network analysis of these specific DEPs indicated that the hub genes were ITGAX, MMP9, C3, F2, CD74, BTK, ANXA1, NCKAP1L, and CASP8. This study accurately isolated the genes that respond to stress, and the results could be helpful for understanding the physiological regulation mechanisms regarding salinity, alkalinity, and salinity-alkalinity interactions.