Southwest Forestry University

Abstract The Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the Ascomycota. The present work provides an overview of all validly published, currently used basidiomycete genera to date in a single document. An outline of all genera of Basidiomycota is provided, which includes 1928 currently used genera names, with 1263 synonyms, which are distributed in 241 families, 68 orders, 18 classes and four subphyla. We provide brief notes for each accepted genus including information on classification, number of accepted species, type species, life mode, habitat, distribution, and sequence information. Furthermore, three phylogenetic analyses with combined LSU, SSU, 5.8s, rpb1, rpb2, and ef1 datasets for the subphyla Agaricomycotina, Pucciniomycotina and Ustilaginomycotina are conducted, respectively. Divergence time estimates are provided to the family level with 632 species from 62 orders, 168 families and 605 genera. Our study indicates that the divergence times of the subphyla in Basidiomycota are 406–430 Mya, classes are 211–383 Mya, and orders are 99–323 Mya, which are largely consistent with previous studies. In this study, all phylogenetically supported families were dated, with the families of Agaricomycotina diverging from 27–178 Mya, Pucciniomycotina from 85–222 Mya, and Ustilaginomycotina from 79–177 Mya. Divergence times as additional criterion in ranking provide additional evidence to resolve taxonomic problems in the Basidiomycota taxonomic system, and also provide a better understanding of their phylogeny and evolution.

Agricultural land use change substantially affects climate, water, ecosystems, biodiversity, and human welfare. In recent decades, due to increasing population and food demand and the backdrop of global warming, croplands have been expanding into higher latitude regions. One such hotspot is paddy rice expansion in northeast China. However, there are no maps available for documenting the spatial and temporal patterns of continuous paddy rice expansion. In this study, we developed an automated, Landsat-based paddy rice mapping (Landsat-RICE) system that uses time series Landsat images and a phenology-based algorithm based on the unique spectral characteristics of paddy rice during the flooding/transplanting phase. As a pilot study, we analyzed all the available Landsat images from 1986 to 2010 (498 scenes) in one tile (path/row 113/27) of northeast China, which tracked paddy rice expansion in epochs with five-year increments (1986-1990, 1991-1995, 1996-2000, 2001-2005, and 2006-2010). Several maps of land cover types (barren land and built-up land; evergreen, deciduous and sparse vegetation types; and water-related land cover types such as permanent water body, mixed pixels of water and vegetation, spring flooded wetlands and summer flooded land) were generated as masks. Air temperature was used to define phenology timing and crop calendar, which were then used to select Landsat images in the phenology-based algorithms for paddy rice and masks. The resultant maps of paddy rice in the five epochs were evaluated using validation samples from multiple sources, and the overall accuracies and Kappa coefficients ranged from 84 to 95% and 0.6-0.9, respectively. The paddy rice area in the study area substantially increased from 1986 to 2010, particularly after the 1990s. This study demonstrates the potential of the Landsat-RICE system and time series Landsat images for tracking agricultural land use changes at 30-m resolution in the temperate zone with single crop cultivation. (C) 2015 Elsevier Inc. All rights reserved.

BACKGROUND: Helicoverpa armigera and Helicoverpa zea are major caterpillar pests of Old and New World agriculture, respectively. Both, particularly H. armigera, are extremely polyphagous, and H. armigera has developed resistance to many insecticides. Here we use comparative genomics, transcriptomics and resequencing to elucidate the genetic basis for their properties as pests. RESULTS: We find that, prior to their divergence about 1.5 Mya, the H. armigera/H. zea lineage had accumulated up to more than 100 more members of specific detoxification and digestion gene families and more than 100 extra gustatory receptor genes, compared to other lepidopterans with narrower host ranges. The two genomes remain very similar in gene content and order, but H. armigera is more polymorphic overall, and H. zea has lost several detoxification genes, as well as about 50 gustatory receptor genes. It also lacks certain genes and alleles conferring insecticide resistance found in H. armigera. Non-synonymous sites in the expanded gene families above are rapidly diverging, both between paralogues and between orthologues in the two species. Whole genome transcriptomic analyses of H. armigera larvae show widely divergent responses to different host plants, including responses among many of the duplicated detoxification and digestion genes. CONCLUSIONS: The extreme polyphagy of the two heliothines is associated with extensive amplification and neofunctionalisation of genes involved in host finding and use, coupled with versatile transcriptional responses on different hosts. H. armigera's invasion of the Americas in recent years means that hybridisation could generate populations that are both locally adapted and insecticide resistant.

Emergence of polyphagous herbivorous insects entails significant adaptation to recognize, detoxify and digest a variety of host-plants. Despite of its biological and practical importance - since insects eat 20% of crops - no exhaustive analysis of gene repertoires required for adaptations in generalist insect herbivores has previously been performed. The noctuid moth Spodoptera frugiperda ranks as one of the world's worst agricultural pests. This insect is polyphagous while the majority of other lepidopteran herbivores are specialist. It consists of two morphologically indistinguishable strains ("C" and "R") that have different host plant ranges. To describe the evolutionary mechanisms that both enable the emergence of polyphagous herbivory and lead to the shift in the host preference, we analyzed whole genome sequences from laboratory and natural populations of both strains. We observed huge expansions of genes associated with chemosensation and detoxification compared with specialist Lepidoptera. These expansions are largely due to tandem duplication, a possible adaptation mechanism enabling polyphagy. Individuals from natural C and R populations show significant genomic differentiation. We found signatures of positive selection in genes involved in chemoreception, detoxification and digestion, and copy number variation in the two latter gene families, suggesting an adaptive role for structural variation.

Abstract Angiosperms are the cornerstone of most terrestrial ecosystems and human livelihoods 1,2 . A robust understanding of angiosperm evolution is required to explain their rise to ecological dominance. So far, the angiosperm tree of life has been determined primarily by means of analyses of the plastid genome 3,4 . Many studies have drawn on this foundational work, such as classification and first insights into angiosperm diversification since their Mesozoic origins 5–7 . However, the limited and biased sampling of both taxa and genomes undermines confidence in the tree and its implications. Here, we build the tree of life for almost 8,000 (about 60%) angiosperm genera using a standardized set of 353 nuclear genes 8 . This 15-fold increase in genus-level sampling relative to comparable nuclear studies 9 provides a critical test of earlier results and brings notable change to key groups, especially in rosids, while substantiating many previously predicted relationships. Scaling this tree to time using 200 fossils, we discovered that early angiosperm evolution was characterized by high gene tree conflict and explosive diversification, giving rise to more than 80% of extant angiosperm orders. Steady diversification ensued through the remaining Mesozoic Era until rates resurged in the Cenozoic Era, concurrent with decreasing global temperatures and tightly linked with gene tree conflict. Taken together, our extensive sampling combined with advanced phylogenomic methods shows the deep history and full complexity in the evolution of a megadiverse clade.

Abstract Drought refers to a meteorological disaster that causes insufficient soil moisture and damage to crop water balance due to long-term lack of precipitation. With the increasing shortage of water resources, drought has become one of the hot issues of global concern. The standardized precipitation index (SPI) and standardized precipitation evapotranspiration index (SPEI) can effectively reflect the changes in drought characteristics of different geomorphologies in Sichuan on time and space scales, to explore the difference in drought characteristics between different physiognomy types in Sichuan Province, We calculated the SPI and SPEI values based on the data of 44 meteorological stations in Sichuan Province from 1961 to 2019 and used Mann–Kendall trend test and multivariable linear regression method (MLR) to quantify the significance of the drought characteristic trends at different time and space scales. The results as follow: (1) The SPEI drought trend in plain and hilly regions was greater than that in plateau and mountain regions on all time scales (− 0.039 year −1 for 1-month in hilly, − 0.035 year −1 for 1-month in plain, − 0.14 year −1 for 1-month in plateau, − 0.026 year −1 for 1-month in mountain) and the magnitude of trend of eastern (− 4.4 to 0.1 year −1 ) was lager than western (− 2.1 to 2.7 year −1 ), means that the drought trends transfer from northwest to east. (2) The drought intensity in the western region gradually increased (0.54–1.05) and drought events mainly occurred in the southwest plateau and central mountainous regions (24–47 times), means that drought meteorological hotspots were mainly concentrated in the Sichuan basin. (3) The MLR indicated altitude ( H ) is not the main influencing factor that causes the spatial unevenness of precipitation in Sichuan Province, but altitude ( H ), temperature ( T ), longitude ( L o ) and latitude ( L a ) can co-determined the precipitation. The results of this study are instructive and practical for drought assessment, risk management and application decision-making in Sichuan Province, and have guiding significance for agricultural disaster prevention, mitigation and agricultural irrigation in Sichuan Province.

The Erhai Lake Basin is an area with the active economic and social development of agriculture and tourism, facing increasingly prominent environmental problems with rapid urbanization. Assessing spatial–temporal changes in ecological environment quality objectively and quantitatively in a timely fashion is crucial for environmental protection and policymaking. First, we selected the high-quality Landsat imagery acquired at the same time phase in the years of 1999, 2004, 2009, 2014, and 2019 respectively. Second, the remote sensing-based ecological index (RSEI) was constructed by using Landsat 5 TM and Landsat 8 OLI/TIRS imagery based on Google Earth Engine (GEE) platform. Third, we assessed the spatial–temporal changes and spatial autocorrelation of ecological environment quality in our study area based on five RSEI maps. The mean values of RSEI in 1999, 2004, 2009, 2014, and 2019 were 0.513 0.457, 0.462, 0.506, and 0.509, respectively, which indicated that the overall ecological environment quality of the Erhai Lake Basin degraded from 1999 to 2009 and promoted from 2009 to 2019. The worst degradation occurred between 1999 and 2004, about 27.12% of the total area was degraded, and the greatest improvement occurred between 2009 and 2014, about 26.42% of the total area was improved. The Globalmoran's I value ranged from 0.662 to 0.783 in 1999–2019, which indicated that the spatial distribution of ecological environment quality was positively correlated. The cluster map of local indicator of spatial association of RSEI show that the high-high points were mainly located in the western and southern high-altitude area of the study area, and the low-low points were mainly distributed in lakeside area, where populations were dense and human activities were frequent. This study provides a promising approach to assess the spatial–temporal changes in ecological environment quality based on RSEI and GEE, which is critical to investigate the interactions between human activities and ecosystem services in basin systems.

100093) 2 (, 510650) 3 (, 100049) 4 (, 100875) 5 (, 100081) 6 (, , 201602) 7 (, 650224) 8 (, 650201) 9 (, 100083) 10 (, 610064) 11 (, 830011) 12 (, 100193) 13 (, 273165) 14 (, 541006) 15 (, 210014) 16 (, 110016) 17 (, 430074) 18 (, 810008) 19 (, 650091) 20 (, 100093) 21 (, 310036) 22 (, 712100) 23 (, 650204) 24 (, 100035) 25 (, 100012) 26 (, 210042) 27 (, 100093) 28 (, 210008)

Today East Asia harbors many "relict" plant species whose ranges were much larger during the Paleogene-Neogene and earlier. The ecological and climatic conditions suitable for these relict species have not been identified. Here, we map the abundance and distribution patterns of relict species, showing high abundance in the humid subtropical/warm-temperate forest regions. We further use Ecological Niche Modeling to show that these patterns align with maps of climate refugia, and we predict species' chances of persistence given the future climatic changes expected for East Asia. By 2070, potentially suitable areas with high richness of relict species will decrease, although the areas as a whole will probably expand. We identify areas in southwestern China and northern Vietnam as long-term climatically stable refugia likely to preserve ancient lineages, highlighting areas that could be prioritized for conservation of such species.

Short-chain fatty acids (SCFAs) are metabolites generated by bacterial fermentation of dietary fiber (DF) in the hindgut. SCFAs are mainly composed of acetate, propionate and butyrate. Many studies have shown that SCFAs play a significant role in the regulation of intestinal health in poultry. SCFAs are primarily absorbed from the intestine and used by enterocytes as a key substrate for energy production. SCFAs can also inhibit the invasion and colonization of pathogens by lowering the intestinal pH. Additionally, butyrate inhibits the expression of nitric oxide synthase ( NOS ), which encodes inducible nitric oxide synthase (iNOS) in intestinal cells via the PPAR-γ pathway. This pathway causes significant reduction of iNOS and nitrate, and inhibits the proliferation of Enterobacteriaceae to maintain overall intestinal homeostasis. SCFAs can enhance the immune response by stimulating cytokine production (e.g. TNF-α, IL-2, IL-6, and IL-10) in the immune cells of the host. Similarly, it has been established that SCFAs promote the differentiation of T cells into T regulatory cells (Tregs) and expansion by binding to receptors, such as Toll-like receptors (TLR) and G protein-coupled receptors (GPRs), on immune cells. SCFAs have been shown to repair intestinal mucosa and alleviate intestinal inflammation by activating GPRs, inhibiting histone deacetylases (HDACs), and downregulating the expression of pro-inflammatory factor genes. Butyrate improves tight-junction-dependent intestinal barrier function by promoting tight junction (TJ) assembly. In recent years, the demand for banning antibiotics has increased in poultry production. Therefore, it is extremely important to maintain the intestinal health and sustainable production of poultry. Taking nutrition strategies is important to regulate SCFA production by supplementing dietary fiber and prebiotics, SCFA-producing bacteria (SPB), and additives in poultry diet. However, excessive SCFAs will lead to the enteritis in poultry production. There may be an optimal level and proportion of SCFAs in poultry intestine, which benefits to gut health of poultry. This review summarizes the biological functions of SCFAs and their role in gut health, as well as nutritional strategies to regulate SCFA production in the poultry gut.

Lignin represents the most abundant source of renewable aromatic resources, and the depolymerization of lignin has been identified as a prominent challenge to produce low-molecular-mass aromatic chemicals. Herein, we report a nanostructured MoOx/CNT, which can serve as an efficient catalyst in hydrogenolysis of enzymatic mild acidolysis lignins (EMALs) derived from various lignocellulosic biomass, thus giving monomeric phenols in high yields (up to 47 wt %). This catalyst showed high selectivity toward phenolic compounds having an unsaturated substituent, because the cleavage of C–O bonds in β-O-4 units is prior to reduction of double bonds by MoOx/CNT under a H2 atmosphere, which was confirmed by examination of lignin model compound reactions. The effects of some key parameters such as the influence of solvent, temperature, reaction time, and catalyst recyclability were also examined in view of monomer yields and average molecular weight. This method constitutes an economically responsible pathway for lignin valorization, which is comparable to the performance of precious-metal catalytic systems in terms of activity, reusability, and biomass feedstock compatibility.

Milled wood lignin (MWL) was isolated from Dendrocalamus sinicus, an abundant bamboo variety in the earth, using Bjorkman method. Elucidation and quantification of the chemical structures for the isolated MWL have been facilitated by employing FT-IR and NMR techniques. The obtained results showed that the MWL consists of syringyl (S), guaiacyl (G), and p-hydroxyphenyl (H) units, indicating it as grass type (HGS) lignin. There is no significant change in structure (i.e. cleavage at α-O-4′ and β-O-4′ linkage) was observed. NMR techniques indicated that the isolated lignin was rich in β-O-4′ aryl ether substructures and syringyl (S) units. Furthermore, the sufficient understanding of the chemical structure of the lignin benefits their effective utilization towards the production of renewable biomass and biofuels.

BACKGROUND: Paddy soil dissolved organic matter (DOM) represents a major hotspot for soil biogeochemistry, yet we know little about its chemodiversity let alone the microbial community that shapes it. Here, we leveraged ultrahigh-resolution mass spectrometry, amplicon, and metagenomic sequencing to characterize the molecular distribution of DOM and the taxonomic and functional microbial diversity in paddy soils across China. We hypothesized that variances in microbial community significantly associate with changes in soil DOM molecular composition. RESULTS: We report that both microbial and DOM profiles revealed geographic patterns that were associated with variation in mean monthly precipitation, mean annual temperature, and pH. DOM molecular diversity was significantly correlated with microbial taxonomic diversity. An increase in DOM molecules categorized as peptides, carbohydrates, and unsaturated aliphatics, and a decrease in those belonging to polyphenolics and polycyclic aromatics, significantly correlated with proportional changes in some of the microbial taxa, such as Syntrophobacterales, Thermoleophilia, Geobacter, Spirochaeta, Gaiella, and Defluviicoccus. DOM composition was also associated with the relative abundances of the microbial metabolic pathways, such as anaerobic carbon fixation, glycolysis, lignolysis, fermentation, and methanogenesis. CONCLUSIONS: Our study demonstrates the continental-scale distribution of DOM is significantly correlated with the taxonomic profile and metabolic potential of the rice paddy microbiome. Abiotic factors that have a distinct effect on community structure can also influence the chemodiversity of DOM and vice versa. Deciphering these associations and the underlying mechanisms can precipitate understanding of the complex ecology of paddy soils, as well as help assess the effects of human activities on biogeochemistry and greenhouse gas emissions in paddy soils.

Cold acclimation is a process used by most temperate plants to cope with freezing stress. In this process, the expression of cold-responsive (COR) genes is activated and the genes undergo physiological changes in response to the exposure to low, non-freezing temperatures and other environmental signals. The C-repeat-binding factors (CBFs) have been demonstrated to regulate the expression of many COR genes. Recent studies have elucidated the molecular mechanisms of how plants transmit cold signals from the plasma membrane to the CBFs and the results have indicated that COR genes are also regulated through CBF-independent pathways. Climate change is expected to have a major impact on cold acclimation and freezing tolerance of plants. However, how climate change affects plant cold acclimation at the molecular level remains unclear. This mini-review focuses on recent advances in cold acclimation in Arabidopsis thaliana and discusses how signaling can be potentially impacted by climate change. Understanding how plants acquire cold acclimation is valuable for the improvement of the freezing tolerance in plants and for predicting the effects of climate change on plant distribution and agricultural yield.

Plant tannins are widely found in plants and can be divided into hydrolyzed tannins and condensed tannins. In recent years, researchers have become more and more interested in using tannin-rich plants and plant extracts in ruminant diets to improve the quality of animal products. Some research results show that plant tannins can effectively improve the quality of meat and milk, and enhance the oxidative stability of the product. In this paper, the classification and extraction sources of plant tannins are reviewed, as well as the biological functions of plant tannins in animals. The antioxidant function of plant tannins is discussed, and the influence of their structure on antioxidation is analyzed. The effects of plant tannins against pathogenic bacteria and the mechanism of action are discussed, and the relationship between antibacterial action and antioxidant action is analyzed. The inhibitory effect of plant tannins on many kinds of pathogenic viruses and their action pathways are discussed, as are the antiparasitic properties of plant tannins. The anti-inflammatory action of tannins and its mechanism are analyzed. The function of plant tannins in antidiarrheal action and its influencing factors are discussed. In addition, the effects of plant tannins as feed additives on animals and the influencing factors are reviewed in this paper to provide a reference for further research.

Abstract The flavonoid extract from Erigeron breviscapus , breviscapine, has increasingly been used to treat cardio- and cerebrovascular diseases in China for more than 30 years, and plant supply of E. breviscapus is becoming insufficient to satisfy the growing market demand. Here we report an alternative strategy for the supply of breviscapine by building a yeast cell factory using synthetic biology. We identify two key enzymes in the biosynthetic pathway (flavonoid-7- O -glucuronosyltransferase and flavone-6-hydroxylase) from E. breviscapus genome and engineer yeast to produce breviscapine from glucose. After metabolic engineering and optimization of fed-batch fermentation, scutellarin and apigenin-7- O -glucuronide, two major active ingredients of breviscapine, reach to 108 and 185 mg l –1 , respectively. Our study not only introduces an alternative source of these valuable compounds, but also provides an example of integrating genomics and synthetic biology knowledge for metabolic engineering of natural compounds.

Mitogen-activated protein kinase (MAPK) cascades are evolutionarily conserved modules among eukaryotic species that range from yeast, plants, flies to mammals. In eukaryotic cells, reactive oxygen species (ROS) has both physiological and toxic effects. Both MAPK cascades and ROS signaling are involved in plant response to various biotic and abiotic stresses. It has been observed that not only can ROS induce MAPK activation, but also that disturbing MAPK cascades can modulate ROS production and responses. This review will discuss the potential mechanisms by which ROS may activate and/or regulate MAPK cascades in plants. The role of MAPK cascades and ROS signaling in regulating gene expression, stomatal function, and programmed cell death (PCD) is also discussed. In addition, the relationship between Rboh-dependent ROS production and MAPK activation in PAMP-triggered immunity will be reviewed.

The Internet of Vehicles (IoV) plays a crucial role in providing diversified services because of its powerful capability of collecting real-time information. Generally, collected information is transmitted to a centralized resource-intensive cloud platform for service implementation. Edge Computing (EC) that deploys physical resources near road-side units is involved in IoV to support real-time services for vehicular users. Additionally, many measures are adopted to optimize the performance of EC-enabled IoV, but they hardly help make dynamic decisions according to real-time requests. Artificial Intelligence (AI) is capable of enhancing the learning capacity of edge devices and thus assists in allocating resources dynamically. Although extensive research has employed AI to optimize EC performance, summaries with relative concepts or prospects are quite few. To address this gap, we conduct an exhaustive survey about utilizing AI in edge service optimization in IoV. Firstly, we establish the general condition and relative concepts about IoV, EC, and AI. Secondly, we review the edge service frameworks for IoV and explore the use of AI in edge server placement and service offloading. Finally, we discuss a number of open issues in optimizing edge services with AI.

. The data presented herein are based on morphological examination of fresh specimens, coupled with analysis of phylogenetic sequence data to better integrate taxa into appropriate taxonomic ranks and infer their evolutionary relationships.

treatment and 701.3 mg/g for WSC with KOH treatment.