Long-term conservation tillage increase cotton rhizosphere sequestration of soil organic carbon by changing specific microbial CO2 fixation pathways in coastal saline soil.

Coastal saline soil is an important reserve resource for arable land globally. Data from 10 years of continuous stubble return and subsoiling experiments have revealed that these two conservation tillage measures significantly improve cotton rhizosphere soil organic carbon sequestration in coastal saline soil. However, the contribution of microbial fixation of atmospheric carbon dioxide (CO2) has remained unclear. Here, metagenomics and metabolomics analyses were used to deeply explore the microbial CO2 fixation process in rhizosphere soil of coastal saline cotton fields under long-term stubble return and subsoiling. Metagenomics analysis showed that stubble return and subsoiling mainly optimized CO2 fixing microorganism (CFM) communities by increasing the abundance of Acidobacteria, Gemmatimonadetes, and Chloroflexi, and improving composition diversity. Conjoint metagenomics and metabolomics analyses investigated the effects of stubble return and subsoiling on the reverse tricarboxylic acid (rTCA) cycle. The conversion of citrate to oxaloacetate was inhibited in the citrate cleavage reaction of the rTCA cycle. More citrate was converted to acetyl-CoA, which enhanced the subsequent CO2 fixation process of acetyl-CoA conversion to pyruvate. In the rTCA cycle reductive carboxylation reaction from 2-oxoglutarate to isocitrate, synthesis of the oxalosuccinate intermediate product was inhibited, with strengthened CO2 fixation involving the direct conversion of 2-oxoglutarate to isocitrate. The collective results demonstrate that stubble return and subsoiling optimizes rhizosphere CFM communities by increasing microbial diversity, in turn increasing CO2 fixation by enhancing the utilization of rTCA and 3-hydroxypropionate/4-hydroxybutyrate cycles by CFMs. These events increase the microbial CO2 fixation in the cotton rhizosphere, thereby promoting the accumulation of microbial biomass, and ultimately improving rhizosphere soil organic carbon. This study clarifies the impact of conservation tillage measures on microbial CO2 fixation in cotton rhizosphere of coastal saline soil, and provides fundamental data for the improvement of carbon sequestration in saline soil in agricultural ecosystems.

Interaction mechanism of carotenoids and polyphenols in mango peels.

In this study, carotenoids and polyphenols were demonstrated to be the major active substances in the crude pigment extracts (CPE) of mango peels, accounting for 0.26 mg/g and 0.15 mg/g, respectively. The interactions between carotenoids and polyphenols in CPE was observed, as evidenced by that polyphenols significantly improved the antioxidant activity and storage stability of carotenoids in the CPE. Meanwhile, scanning electron microscopy showed that polyphenols are tightly bound to carotenoids. To further elucidate the interaction mechanism, the monomers of carotenoids and polyphenols were identified by HPLC and LC-MS analysis. Lutein (203.85 µg/g), ß-carotene (41.40 µg/g), zeaxanthin (4.20 µg/g) and α-carotene (1.50 µg/g) were authenticated as the primary monomers of carotenoids. Polyphenols were mainly consisted of gallic acid (95.10 µg/g), quercetin-3-ß-glucoside (29.10 µg/g), catechin (11.85 µg/g) and quercetin (11.55 µg/g). The interaction indexes between carotenoid and polyphenol monomer of CPE were calculated. The result indicated that lutein and gallic acid showed the greatest synergistic effect on the scavenging of DPPH and ABTS radical, suggesting the interaction between carotenoids and polyphenols in CPE was mainly caused by lutein and gallic acid. Molecular dynamics simulations and thermodynamic parameters analysis demonstrated that hydrogen bonding, electrostatic interactions, and van der Waals forces played dominant roles in the interaction between lutein and gallic acid, which was confirmed by Raman and X-ray diffraction. These results provided a new perspective on the interaction mechanism between carotenoids and polyphenols, which offered a novel strategy for the enhancement of the activities and stability of bioactive substances.

Evolution and natural selection of ribosome-inactivating proteins in bacteria, fungi, and plants.

Ribosome-inactivating proteins (RIPs) are found in bacteria, fungi, and plants, with a wide range of biological resistances such as anti-fungal, anti-viral, anti-insect, and anti-tumor. They can be roughly divided into proactive defense bacterial or fungal types and passive defense plant types. We identified 1592 RIP genes in bacteria, fungi, and plants. Approximately 88 % of the 764 bacterial RIPs were Shiga or Shiga-like toxins which were exotoxins and could rapidly enter cells to possess strong biotoxicity, and about 98 % of fungal RIPs were predicted as secreted proteins. RIPs were not detected in non-seed plants such as algae, bryophytes, and ferns. However, we found RIPs in some flowering and non-flowering seed plants. The existence of plant RIPs might be related to the structure of seeds or fruits, which might be associated with whether seeds are easy to survive and spread. The evolutionary characteristics of RIPs were different between dicotyledons and monocotyledons. In addition, we also found that RIP2 genes might emerge very early and be plant-specific. Some plant RIP1 genes might evolve from RIP2 genes. This study provides new insights into the evolution of RIPs.

Genome-wide identification and expression analysis of the HVA22 gene family in cotton and functional analysis of GhHVA22E1D in drought and salt tolerance.

The HVA22 family of genes, induced by abscisic acid and stress, encodes a class of stress response proteins with a conserved TB2/DP1/HVA22 domain that are unique among eukaryotes. Previous studies have shown that HVA22s play an important role in plant responses to abiotic stresses. In the present study, 34, 32, 16, and 17 HVA22s were identified in G. barbadense, G. hirsutum, G. arboreum, and G. raimondii, respectively. These HVA22 genes were classified into nine subgroups, randomly distributed on the chromosomes. Synteny analysis showed that the amplification of the HVA22s were mainly due to segmental duplication or whole genome replication (WGD). Most HVA22s promoter sequences contain a large number of drought response elements (MYB), defense and stress response elements (TC-rich repeats), and hormone response elements (ABRE, ERE, SARE, etc.), suggesting that HVA22s may respond to adversity stresses. Expression profiling demonstrated that most GhHVA22s showed a constitutive expression pattern in G. hirsutum and could respond to abiotic stresses such as salt, drought, and low temperature. Overexpression of GhHVA22E1D (GH_D07G0564) in Arabidopsis thaliana enhances salt and drought tolerance in Arabidopsis. Virus-induced gene silencing of GhHVA22E1D reduced salt and drought tolerance in cotton. This indicates that GhHVA22E1D plays an active role in the plant response to salt stress and drought stress. GhHVA22E1D may act in plant response to adversity by altering the antioxidant capacity of plants. This study provides valuable information for the functional genomic study of the HVA22 gene family in cotton. It also provides a reference for further elucidation of the functional studies of HVA22 in plant resistance to abiotic stress response.

Free-standing reduced graphene oxide/carboxymethylcellulose-polyaniline (RGO/CMC-PANI) hybrid film electrode for high-performance asymmetric supercapacitor device.

This work demonstrates a facile and effective strategy for the preparation of a reduced graphene oxide/carboxymethylcellulose-polyaniline (RGO/CMC-PANI) hybrid film electrode. Specifically, through the hydrogen bonding interaction between -OH of CMC molecules and -NH2 of aniline monomer, PANI grows in an ordered manner on the surface of CMC, which effectively alleviates the structural collapse of PANI during the continuous charge/discharge process. After compounding with RGO, CMC-PANI bridges adjacent RGO sheets to form a complete conductive path, and opens the gap between RGO sheet layers to obtain fast ion channels. As a result, the RGO/CMC-PANI electrode exhibits excellent electrochemical performance. Moreover, an asymmetric supercapacitor was fabricated using RGO/CMC-PANI as the anode and Ti3C2Tx as the cathode. The results show that the device has a large specific capacitance of 450 mF cm-2 (81.8 F g-1) at 1 mA cm-2 and a high energy density of 140.6 µWh cm-2 at a power density of 749.9 µW cm-2. Besides, 87.3 % initial capacitance and 100 % good coulombic efficiency can be maintained even after 20,000 GCD cycles. Therefore, the device has a broad application prospect in the field of new-generation microelectronic energy storage.

Degradation mechanism and pathway of tetracycline in milk by heterojunction N-TiO2-Bi2WO6 film under visible light.

N-doped TiO2-Bi2WO6 (NTB) three-component photocatalyst was prepared using a glycol solvothermal method. The photocatalysts and films were characterized, and applied to the degradation of tetracycline (TC) in milk and its effect on the quality of milk. The results show that the NTB photocatalyst exhibits good photocatalytic activity under visible light, and its TC degradation rate is increased by 1.76, 1.49, 1.42, 1.16, and 1.13 times higher than that of TiO2, Bi2WO6, N-TiO2, N-Bi2WO6 and TiO2-Bi2WO6, respectively. Due to the N doping, the photogenerated electron-hole pair recombination rate of photocatalyst is greatly reduced, which improving its photocatalytic performance. Additionally, the absorption wavelength threshold is enlarged by 459 nm, the gap width is reduced to 2.69 eV, and the degradation rate of TC is still 83.24 % after 5 repetitions. HPLC-MS revealed the active species, intermediates and photodegradation pathways in the photocatalytic process.

A simple nanocomposite photocatalyst HT-rGO/TiO2 for deoxynivalenol degradation in liquid food.

A simple nanocomposite photocatalyst HT-rGO/TiO2 for deoxynivalenol (DON) degradation was synthesized by hydrothermal method to maintain the quality of cereal grains and byproducts. The characterization of HT-rGO/TiO2 was analyzed by XRD, FTIR, Raman spectroscopy, and XPS. Moreover, according to UV-vis DRS analysis, HT-rGO/TiO2 had a smaller band gap, indicating a wider response range to light and a higher utilized rate of quantum photons. Additionally, the results of LC-MS showed that the hydroxyl group at the C3 position, and the unsaturated bond between C9 and C10, and the epoxy group at C12 and C13 positions of DON molecule were destroyed step by step by photocatalytic degradation. These groups have active effects on the DON toxicity, which means it is successful to degrade DON in liquid-food by HT-rGO/TiO2 photocatalyst.

Overexpression of GhABF3 increases cotton(Gossypium hirsutum L.) tolerance to salt and drought.

BACKGROUND: Plants suffer from various abiotic stresses during their lifetime, of which drought and salt stresses are two main factors limiting crop yield and quality. Previous studies have shown that abscisic acid (ABA) responsive element binding protein (AREB)/ ABRE binding factors (ABFs) in bZIP transcription factors are involved in plant stress response in an ABA-dependent manner. However, little is known about the properties and functions of AREB/ABFs, especially ABF3, in cotton. RESULTS: Here, we reported the cloning and characterization of GhABF3. Expression of GhABF3 was induced by drought,salt and ABA treatments. Silencing of GhABF3 sensitized cotton to drought and salt stress, which was manifested in decreased cellular antioxidant capacity and chlorophyll content. Overexpression of GhABF3 significantly improved the drought and salinity tolerance of Arabidopsis and cotton. Exogenous expression of GhABF3 resulted in longer root length and less leaf wilting under stress conditions in Arabidopsis thaliana. Overexpressing GhABF3 significantly improved salt tolerance of upland cotton by reducing the degree of cellular oxidation, and enhanced drought tolerance by decreasing leaf water loss rate. The increased expression of GhABF3 up-regulated the transcriptional abundance of downstream ABA-inducible genes under salt stress in Arabidopsis. CONCLUSION: In conclusion, our results demonstrated that GhABF3 plays an important role in plant drought and salt tolerance. Manipulation of GhABF3 by biotechnology might be an important strategy to alter the stress resistance of cotton.

Dynamic Quantitative Trait Loci Mapping for Plant Height in Recombinant Inbred Line Population of Upland Cotton.

Plant height (PH) is a key plant architecture trait for improving the biological productivity of cotton. Ideal PH of cotton is conducive to lodging resistance and mechanized harvesting. To detect quantitative trait loci (QTL) and candidate genes of PH in cotton, a genetic map was constructed with a recombinant inbred line (RIL) population of upland cotton. PH phenotype data under nine environments and three best linear unbiased predictions (BLUPs) were used for QTL analyses. Based on restriction-site-associated DNA sequence (RAD-seq), the genetic map contained 5,850 single-nucleotide polymorphism (SNP) markers, covering 2,747.12 cM with an average genetic distance of 0.47 cM. Thirty-seven unconditional QTL explaining 1.03-12.50% of phenotypic variance, including four major QTL and seven stable QTL, were identified. Twenty-eight conditional QTL explaining 3.27-28.87% of phenotypic variance, including 1 major QTL, were identified. Importantly, five QTL, including 4 stable QTL, were both unconditional and conditional QTL. Among the 60 PH QTL (including 39 newly identified), none of them were involved in the whole period of PH growth, indicating that QTL related to cotton PH development have dynamic expression characteristics. Based on the functional annotation of Arabidopsis homologous genes and transcriptome data of upland cotton TM-1, 14 candidate genes were predicted within 10 QTL. Our research provides valuable information for understanding the genetic mechanism of PH development, which also increases the economic production of cotton.

A novel Ag2O-TiO2-Bi2WO6/polyvinyl alcohol composite film with ethylene photocatalytic degradation performance towards banana preservation.

In this research, the Ag2O-TiO2-Bi2WO6(ATB) ternary heterojunction photocatalyst was synthesized by hydrothermal and surface deposition method, and the ATB/PVA composite film with ethylene photocatalytic degradation performance was constructed by the casting method. The structure and properties of ATB and ATB/PVA films were characterized and applied to banana preservation. The results showed that the addition of ATB could improve the mechanical properties, thermal stability, oxygen and moisture resistance, and reduce the crystallinity and light transmittance of PVA films. Compared with TiO2, Bi2WO6 and TB photocatalysts, ATB had the best photocatalytic degradation effect of ethylene under LED light. Compared with blank group, the ethylene concentration decreased by 17.17%. This was mainly attributed to the formation of heterostructure among Ag2O, TiO2 and Bi2WO6, which promoted the separation and transfer of photogenerated carriers. The ATB/PVA composite coating could effectively prevent the respiration of the bananas by inhibiting gas exchange and degrading ethylene, which reduced the weight loss, inhibited glycogen decomposition, improved the pulp hardness, increased titratable acid content, reduced the PPO activity, hindered the phenol oxidation and keep better apparent color of bananas. The safety study suggested that the ATB/PVA film is safe for bananas packaging application.

Genome-wide identification and analysis of Oleosin gene family in four cotton species and its involvement in oil accumulation and germination.

BACKGROUND: Cotton is not only a major textile fiber crop but also a vital oilseed, industrial, and forage crop. Oleosins are the structural proteins of oil bodies, influencing their size and the oil content in seeds. In addition, the degradation of oleosins is involved in the mobilization of lipid and oil bodies during seed germination. However, comprehensive identification and the systematic analysis of the Oleosin gene (OLEOs) family have not been conducted in cotton. RESULTS: An in-depth analysis has enabled us to identify 25 and 24 OLEOs in tetraploid cotton species G. hirsutum and G. barbadense, respectively, while 12 and 13 OLEOs were identified in diploid species G. arboreum and G. raimondii, respectively. The 74 OLEOs were further clustered into three lineages according to the phylogenetic tree. Synteny analysis revealed that most of the OLEOs were conserved and that WGD or segmental duplications might drive their expansion. The transmembrane helices in GhOLEO proteins were predicted, and three transmembrane models were summarized, in which two were newly proposed. A total of 24 candidate miRNAs targeting GhOLEOs were predicted. Three highly expressed oil-related OLEOs, GH_A07G0501 (SL), GH_D10G0941 (SH), and GH_D01G1686 (U), were cloned, and their subcellular localization and function were analyzed. Their overexpression in Arabidopsis increased seed oil content and decreased seed germination rates. CONCLUSION: We identified OLEO gene family in four cotton species and performed comparative analyses of their relationships, conserved structure, synteny, and gene duplication. The subcellular localization and function of three highly expressed oil-related OLEOs were detected. These results lay the foundation for further functional characterization of OLEOs and improving seed oil content.

Leaf photosynthetic and anatomical insights into mechanisms of acclimation in rice in response to long-term fluctuating light.

Long-term fluctuating light (FL) conditions are very common in natural environments. The physiological and biochemical mechanisms for acclimation to FL differ between species. However, most of the current conclusions regarding acclimation to FL were made based on studies in algae or Arabidopsis thaliana. It is still unclear how rice (Oryza sativa L.) integrate multiple physiological changes to acclimate to long-term FL. In this study, we found that rice growth was repressed under long-term FL. By systematically measuring phenotypes and physiological parameters, we revealed that: (a) under short-term FL, photosystem I (PSI) was inhibited, while after 1-7 days of long-term FL, both PSI and PSII were inhibited. Higher acceptor-side limitation in electron transport and higher overall nonphotochemical quenching (NPQ) explained the lower efficiencies of PSI and PSII, respectively. (b) An increase in pH differences across the thylakoid membrane and a decrease in thylakoid proton conductivity revealed a reduction of ATP synthase activity. (c) Using electron microscopy, we showed a decrease in membrane stacking and stomatal opening after 7 days of FL treatment. Taken together, our results show that electron flow, ATP synthase activity and NPQ regulation are the major processes determining the growth performance of rice under long-term FL conditions.

Novel visible light-responsive graphene oxide/Bi2WO6/starch composite membrane for efficient degradation of ethylene.

Graphene oxide/Bi2WO6 (GBW) photocatalyst was synthesized using a hydrothermal and surface deposition method. GBW/starch composite films with different graphene oxide (GO) additions (0, 0.25, 0.5, 0.75, 1 %) were prepared using a casting method. The GBW photocatalyst and composite starch film were characterized using X-ray diffractometry, X-ray photoelectron spectroscopy, Ultraviolet-visible diffuse reflectance spectroscopy, scanning electron microscopy, Fourier transform infrared spectroscopy, synchronous thermal analyzer, and the capacity of photocatalytic degradation of ethylene under visible light was evaluated. The results showed that GBW strengthens the mechanical properties, water vapor resistance and thermal stability of the composite film. Proper introduction of GO can refine lattice size, reduce bandgap and enhance visible light absorption. When the addition of GO was 0.5 %, GBW/starch composite film showed the strongest visible light degradation activity for ethylene, and the rate constant K' was 9.91 × 10-4 min-1, 4.4 times that of pure Bi2WO6. The composite film also had good recycling performance.

Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage.

BACKGROUND: Salinity is a major abiotic stress seriously hindering crop yield. Development and utilization of tolerant varieties is the most economical way to address soil salinity. Upland cotton is a major fiber crop and pioneer plant on saline soil and thus its genetic architecture underlying salt tolerance should be extensively explored. RESULTS: In this study, genome-wide association analysis and RNA sequencing were employed to detect salt-tolerant qualitative-trait loci (QTLs) and candidate genes in 196 upland cotton genotypes at the germination stage. Using comprehensive evaluation values of salt tolerance in four environments, we identified 33 significant single-nucleotide polymorphisms (SNPs), including 17 and 7 SNPs under at least two and four environments, respectively. The 17 stable SNPs were located within or near 98 candidate genes in 13 QTLs, including 35 genes that were functionally annotated to be involved in salt stress responses. RNA-seq analysis indicated that among the 98 candidate genes, 13 were stably differentially expressed. Furthermore, 12 of the 13 candidate genes were verified by qRT-PCR. RNA-seq analysis detected 6640, 3878, and 6462 differentially expressed genes at three sampling time points, of which 869 were shared. CONCLUSIONS: These results, including the elite cotton accessions with accurate salt tolerance evaluation, the significant SNP markers, the candidate genes, and the salt-tolerant pathways, could improve our understanding of the molecular regulatory mechanisms under salt stress tolerance and genetic manipulation for cotton improvement.

Genome-wide association analysis of salt tolerance QTLs with SNP markers in maize (Zea mays L.).

BACKGROUND: Salt-tolerant breeding of maize has great significance to the development and utilization of saline-alkaline soil and the maintenance of grain security. Genome-wide association study (GWAS) has been widely used in maize genetics and breeding. OBJECTIVE: To discover new salt-tolerant genes in maize by association analysis, which can provide technical supports for the innovation and genetic improvement of salt-tolerant germplasm resources in maize. METHODS: Totally 150 maize inbred lines were genotyped with a high-density chip. GWAS was carried out to identify the significant single nucleotide polymorphisms (SNPs) which were associated with maize salt tolerance. Totally 34,972 SNPs with high quality and diversity were selected from 56,110 SNP markers, which were distributed on 10 chromosomes of maize. The GLM algorithm in TASSEL5.2 was used to analyze the five traits related to salt tolerance. RESULTS: Using a strict LOD threshold of 4.5, totally 7 SNP loci were identified, which were significantly correlated with plant height change rate and fresh weight change rate. The high density fingerprints of 150 inbred lines were clustered by TASSEL5.2 software to construct genetic clustering map to estimate the genetic distance and the subgroups. The 150 maize inbred lines were divided into two groups: SS group and NSS group, and the SNP loci of the salt-tolerant index showed difference in chromosome distribution. Based on previous studies, we screened 8 candidate genes for salt tolerance in maize and four of them were further validated by real-time quantitative PCR. CONCLUSION: Totally 7 SNP loci and 8 candidate genes related to salt tolerance in maize were identified, which will be of special value in molecular breeding of salt-tolerant maize.

Digestibility and structures of vinasse starches with different types of raw rice and fermented leaven.

In consideration of health benefits, more digestible vinasses were investigated, which are associated with the use of different raw cereals and fermented leavens. In an in vitro digestibility test, milled long-grain glutinous rice vinasse with Taibai rice leaven showed a slow glucose-controlled release potential, which contained 37.08% slowly digestible starch, after complete vinasse consumption. The crystalline structure, thermal properties and morphology of vinasse starches were analysed. The relatively long amylopectin chains, which originated from the starch structure present in raw rice and the higher glucoamylase activity of the fermented leaven, partly explained the slower digestion of vinasse. By the optimization of the type of fermented leaven used and the starch structure of the raw rice in fermentation, the rate of vinasse starch digestion could be controlled, resulting in improved nutritional value. The results of this study are important for designing healthy vinasse products by controlling starch structures and digestion rates.

Overdominance is the major genetic basis of lint yield heterosis in interspecific hybrids between G. hirsutum and G. barbadense.

The genetic basis of heterosis has not been resolved for approximately a century, although the role of loci with overdominant (ODO) effects has continued to be discussed by biologists. In the present investigation, a proposed model was studied in Gossypium hirsutum L. introgression lines (ILs) harbouring a segment of G. barbadense. These introgressions were confirmed by a single marker of G. barbadense. These ILs contained 396 quantitative trait loci (QTLs) for 11 yield and non-yield traits that were recorded in the field on homozygous and heterozygous plants for 5 years. After comparing the different types of QTLs between the yield group and the non-yield group, it was found that the yield group had significantly higher ODO QTL ratios. Moreover, 16 ODO QTLs identified for 5 yield-related traits were consistently detected during 5 cotton growing seasons (2010-2011 and 2013-2015): 6 of 7 for boll weight, 3 of 11 for seed-cotton yield per plant, 4 of 17 for boll number, 2 of 13 for lint yield per plant and 1 of 11 for lint percentage. Therefore, we propose that overdominance is the major genetic basis of lint yield heterosis in interspecific hybrids between G. barbadense and G. hirsutum. These findings have important implications in cotton breeding in that the boll weight can be improved by utilizing ODO QTLs via heterosis; thus, the stagnant yield barrier can be smashed to achieve sustainable increases in cotton production. Additionally, this concept can be translated to other field crops for improving their yield potential.

Enhancement of bioethanol production from Moso bamboo pretreated with biodiesel crude glycerol: Substrate digestibility, cellulase absorption and fermentability.

Utilization of sustainable energy is limited by energy requirement for the manufacturing of renewable fuels. Moso bamboo was pretreated with industrially derived crude glycerol obtained from different sources at 150/160 °C for 3 h. This bamboo, pretreated with base biodiesel glycerol with pressure filtration removal method, showed a high glucose yield of 94.95% and an ethanol yield of 73.10% of the theoretical. Major glycerol content was removed by pressure filtration, leaving a small amount of fatty acid soap in the pretreated sample, which formed an emulsion that reduced lignin redisposition onto the biomass surface and effectively blocked lignin absorption of cellulase, allowing greater enzymatic hydrolysis and fermentation system function. The surface was more hydrophilic and a higher lignin removal was achieved: 39.24% with base biodiesel glycerol pretreatment compared to 26.08% with sodium hydroxide glycerol pretreatment. This study provides a useful and cost-effective process, BBGP, for high-yield ethanol production.

Identification and characterization analysis of sulfotransferases (SOTs) gene family in cotton (Gossypium) and its involvement in fiber development.

BACKGROUND: Sulfotransferases (SOTs) (EC 2.8.2.-) play a crucial role in the sulphate conjugation reaction involved in plant growth, vigor, stress resistance and pathogen infection. SOTs in Arabidopsis have been carried out and divided into 8 groups. However, the systematic analysis and functional information of SOT family genes in cotton have rarely been reported. RESULTS: According to the results of BLASTP and HMMER, we isolated 46, 46, 76 and 77 SOT genes in the genome G. arboreum, G. raimondii, G. barbadense and G. hirsutum, respectively. A total of 170 in 245 SOTs were further classified into four groups based on the orthologous relationships comparing with Arabidopsis, and tandem replication primarily contributed to the expansion of SOT gene family in G. hirsutum. Expression profiles of the GhSOT showed that most genes exhibited a high level of expression in the stem, leaf, and the initial stage of fiber development. The localization analysis indicated that GhSOT67 expressed in cytoplasm and located in stem and leaf tissue. Additionally, the expression of GhSOT67 were induced and the length of stem and leaf hairs were shortened after gene silencing mediated by Agrobacterium, compared with the blank and negative control plants. CONCLUSIONS: Our findings indicated that SOT genes might be associated with fiber development in cotton and provided valuable information for further studies of SOT genes in Gossypium.

Genome-Wide Association Study Identifies Candidate Genes Related to Seed Oil Composition and Protein Content in Gossypium hirsutum L.

Cotton (Gossypium spp.) is a leading natural fiber crop and an important source of vegetable protein and oil for humans and livestock. To investigate the genetic architecture of seed nutrients in upland cotton, a genome-wide association study (GWAS) was conducted in a panel of 196 germplasm resources under three environments using a CottonSNP80K chip of 77,774 loci. Relatively high genetic diversity (average gene diversity being 0.331) and phenotypic variation (coefficient of variation, CV, exceeding 3.9%) were detected in this panel. Correlation analysis revealed that the well-documented negative association between seed protein (PR) and oil may be to some extent attributable to the negative correlation between oleic acid (OA) and PR. Linkage disequilibrium (LD) was unevenly distributed among chromosomes and subgenomes. It ranged from 0.10-0.20 Mb (Chr19) to 5.65-5.75 Mb (Chr25) among the chromosomes and the range of Dt-subgenomes LD decay distances was smaller than At-subgenomes. This panel was divided into two subpopulations based on the information of 41,815 polymorphic single-nucleotide polymorphism (SNP) markers. The mixed linear model considering both Q-matrix and K-matrix [MLM(Q+K)] was employed to estimate the association between the SNP markers and the seed nutrients, considering the false positives caused by population structure and the kinship. A total of 47 SNP markers and 28 candidate quantitative trait loci (QTLs) regions were found to be significantly associated with seven cottonseed nutrients, including protein, total fatty acid, and five main fatty acid compositions. In addition, the candidate genes in these regions were analyzed, which included three genes, Gh_D12G1161, Gh_D12G1162, and Gh_D12G1165 that were most likely involved in the control of cottonseed protein concentration. These results improved our understanding of the genetic control of cottonseed nutrients and provided potential molecular tools to develop cultivars with high protein and improved fatty acid compositions in cotton breeding programs through marker-assisted selection.