Evolutionary Branch Research Articles

Isolation and Characterization of Getah Virus GD2202 from Mosquitoes in Foshan, China.

Background: Getah virus (GETV) is a vector-borne virus that can proliferate in mosquitoes and be transmitted to host animals through bites. Clinical infection with the virus mainly causes diarrhea and reproductive disorders in pigs and fever, rash, and edema in horses. This caused huge losses to the pig industry and also affected the level of competition for horses. GETV has proliferated across over 20 regions within China, recently resulting in miscarriages and fatalities among the pig population, Guangdong province. Currently, there are no highly effective preventative or therapeutic strategies for diseases induced by GETV. Understanding the infection pathways, inclusive of GETV transmission vectors, is of paramount importance for the prevention and management of the disease. Results: To clarify the main transmission vectors and genotypes of GETV in this area, 3600 mosquitoes of different species were collected and GETV was detected using quantitative reverse transcription PCR. The minimum infection rate was 1.36 for Culex tritaeniorhynchus and 0.83 for Anopheles sinensis. The GETV GD2202 strain was successfully isolated from C. tritaeniorhynchus using mouse neuroblastoma (N2a) cells, and its complete genome was sequenced by PCR. This represents the first identification and isolation of GETV from mosquitoes in Guangdong Province of Southern China. Comparison with GenBank data showed 99.3% identity with the E2 gene of the GDFS2-2018 and GDFS9-2018 strains causing disease in local pig populations, and a nucleotide similarity of 99.8% with the E2 gene of the HNNY-1, HNPDS-1, and HNPDS-2 strains isolated from pigs in Henan, and the highest identity with the JL1708 strain isolated from mosquitoes in Jilin Province, with a nucleotide similarity in the E2 gene of 99.9%. Phylogenetic analysis showed that it had the closest genetic evolutionary relationship with the Culex-derived JL1708 strain and was on the same evolutionary branch as the pig-derived HNNY-1, HNPDS-1, and HNPDS-2 strains. Conclusion: A comprehensive investigation was undertaken to examine the prevalence of GETV infection among various mosquito species in Foshan, Guangdong Province, China. The findings indicated that C. tritaeniorhynchus acted as the principal vector for transmission, predominantly infected with GETV genotype III. This genotype was consistent with that identified in deceased pig populations and demonstrated significant homology. This study provides a robust scientific basis for understanding the propagation of GETV, thereby offering vital insights for the formulation of disease prevention and control strategies.

Description and Genetic Barcode of Arria stanleyi sp. nov. (Mantodea: Haaniidae), a new moss-mimicking mantis species from Vietnam

A new species of moss-mimicking mantis, Arria stanleyi sp. nov. is described based on female and male specimens collected in Tam Dao, Vietnam. The new species shows morphological characteristics vastly different from most other species in the genus Arria (Stal, 1877), with Arria muscoamicta (Unnahachote et al. 2021) having the most similar characteristics. Its discovery may outline a distant evolutionary branch compared to other species within the genus due to its geographic isolation and unique morphology. Genetic barcode is presented, and behavior and habitat are described.

Molecular Turn in Yersinia pestis Pathogenesis: Implications of the gppA Frameshift for Bacterial Survival in Human Macrophage

Yersinia pestis, the etiological agent of the devastating plague, has caused three pandemics in human history. While known for its fatality, it has long been intriguing that biovar microtus strains are highly attenuated to humans. The survival and replication within macrophages are critical in the early stages of the Y. pestis lifestyle within warm-blooded hosts. Here, we demonstrate that a frameshift truncation of gppA, a gene encoding the phosphohydrolase GppA that responsible for the conversion of stringent response alarmone pppGpp to ppGpp, significantly promotes Y. pestis to survive inside human macrophages. This frameshift mutation of gppA is present in all the evolutionary branches formed by the modern Y. pestis strains responsible for the plague pandemics, while the relative ancient microtus strains express a functional GppA showing high activity in catalyzing pppGpp to ppGpp conversion. This adaptive evolution potentially explains why microtus Y. pestis strains exhibit attenuated virulence in humans in contrast to the lethal pathogenicity of non-microtus strains. Transcriptome analysis suggests that the disturbed balance of the ratio of ppGpp to pppGpp caused by GppA inactivation results in an upregulation of genes involved in the synthesis of branched-chain amino acids, which are essential for bacterial growth. This enhanced survival ability within macrophages could be a key factor for the virulence of Y. pestis towards humans. Our work sheds light on the molecular mechanisms behind Y. pestis host-specific pathogenicity, offering a glimpse into the transformative journey of a seemingly harmless bacterium into a formidable foe in humans. This understanding holds significant implications for enhancing our ability to predict and counteract the emergence of new infectious diseases.

Subcellular Enrichment Patterns of New Genes in Drosophila Evolution.

The evolutionary patterns of proteins within subcellular compartments underlie the innovation and diversification foundation of the living eukaryotic organism. The location of proteins in subcellular compartments promotes the formation of network interaction modules, which in turn reshape the architecture of higher-level protein-protein interaction networks. Here, we conducted the most up-to-date gene age dating of Drosophila melanogaster by employing recently available long-read sequencing genomes as references. We found that an elevated gene fixation in the most recent common ancestor of Drosophila genus predated the divergence between two Drosophila subgenera, and a significant tendency of these genes in D. melanogaster encode proteins that localize to the extracellular matrix, accompanying the adaptive radiation of Drosophila species. Proteins encoded by genes located in the extracellular space exhibit higher sequence divergence, suggesting a rapid evolutionary process. We also observed that proteins encoded by genes originating from the same evolutionary branches tend to co-localize in the same subcellular compartments, and proteins in the same subcellular compartment tend to interact with each other. The proteins encoded by genes that have persisted through deeper branches exhibit broader localization across multiple subcellular compartments, enhancing the likelihood of their integration into various protein or gene regulatory networks, thereby increasing functional diversity. These evolutionary patterns not only contribute to understanding the evolution of subcellular localization in proteins encoded by genes originating from different branches, but also provide insights into the evolution of protein-protein networks driven by the emergence of new genes.

Emerging and characterization of a novel fowl adenovirus 4 strain with open reading frame 19 (ORF19) in diseased chickens from China.

Emerging and characterization of a novel fowl adenovirus 4 strain with open reading frame 19 (ORF19) in diseased chickens from China.

Streptococcus wuxiensis sp. nov., Streptococcus jiangnanensis sp. nov. and Streptococcus fermentans sp. nov.: three novel species of genus Streptococcus isolated from human breast milk.

Three novel coccoid-shaped strains, designated 21WXBC0057M1T, 21WXBC0044M1T and BJSWXB5TM5T, were isolated from human breast milk in Wuxi, Jiangsu Province, China. These strains were facultative anaerobes, catalase-negative and Gram-positive. Through a comprehensive analysis of rRNA genes, protein-coding housekeeping genes and genomic phylogeny, we identified these strains as belonging to the genus Streptococcus. Specifically, strain 21WXBC0057M1T was phylogenetically most closely related to Streptococcus infantis, strain 21WXBC0044M1T was most closely related to Streptococcus oralis and strain BJSWXB5TM5T displayed similarities to Streptococcus australis, Streptococcus peroris and S. infantis. The pairwise average nucleotide identity and digital DNA-DNA hybridization values for these three strains were below 95 and 70%, respectively, indicating that they occupied evolutionary branches distinct from all previously validly published Streptococcus species. Distinctive phenotypic characteristics discriminated these novel species from the type strains of their most closely related species. The major cellular fatty acids in the three strains were C16 : 0 and C18 : 0. Genome annotation and a thorough examination of carbohydrate-active enzyme distribution highlighted the observation that all strains possessed extensive capabilities for carbohydrate metabolism, particularly human milk oligosaccharides utilization. Thus, based on these findings, we proposed the classification of the strains as representing three novel species within the genus Streptococcus: Streptococcus wuxiensis sp. nov. (type strain 21WXBC0057M1T=GDMCC 1.4126T=KCTC 25760T), Streptococcus jiangnanensis sp. nov. (type strain 21WXBC0044M1T= GDMCC 1.4127T=KCTC 25762T) and Streptococcus fermentans sp. nov. (type strain BJSWXB5TM5T=GDMCC 1.4130T=KCTC 25759T).

Prevalence and Molecular Characterization of Porcine Parvovirus 2 in Southwest China During 2020-2023.

Porcine parvovirus (PPV) is a non-enveloped, single-stranded linear DNA virus that induces reproductive disorders in sows, particularly abortions in primiparous sows. This study investigated the prevalence of PPV in the southwestern region and conducted molecular characterization of PPV strains. An epidemiological survey was conducted on 1534 aborted fetuses from the southwestern region between 2020 and 2023, revealing an abortion rate of 3.00% due to PPV2, with the highest rate of 3.77% in Sichuan. Additionally, 2973 blood samples from sows were tested using ELISA, showing a PPV2 antibody positivity rate of 73.03% to 90%. Through shotgun metagenomics, PPV2 SC2020 was identified in aborted fetal samples from a pig farm in Pengzhou, Sichuan. PCR sequencing analysis yielded seven PPV2 genomic sequences, and the phylogenetic analysis of eight PPV2 strains with thirty reference strains showed distinct evolutionary branches. The virus was successfully isolated from PPV2-positive samples, and the phylogenetic analysis of PPV2 SC2020 revealed ORF1 gene homology of 94.9% to 99.3% and the ORF2 gene homology of 93.1% to 98.0%, with 34 reference strains. Homologous recombination analysis indicated that SC2020 is a recombinant strain of HeB03 and S1.

The Spleen Virome of Australia's Endemic Platypus Is Dominated by Highly Diverse Papillomaviruses.

The platypus (Ornithorhynchus anatinus), a unique monotreme, represents a pivotal point in mammalian evolution with its distinctive traits, such as electroreception and venom production. Despite its evolutionary significance, the viral diversity within platypuses remains poorly understood. This study employed next-generation sequencing to investigate the virome of the dead platypuses, uncovering a range of novel and divergent viruses. Among the identified viruses were four complete genomes of papillomaviruses (OaPV1-4) exhibiting substantial divergence from known strains, suggesting a novel genus within the subfamily Secondpapillomavirinae. Additionally, five novel parvoviruses were detected, including two with complete genomes, highlighting the complex viral ecosystem of the platypus. Phylogenetic analysis placed these viruses in unique evolutionary branches, further demonstrating the platypus's evolutionary significance. A circular DNA virus, a tombus-like virus, and a nodamuvirus were also identified, expanding the understanding of viral diversity in monotremes. These findings offer crucial insights into viral evolution in one of the most unique mammalian lineages, emphasising the need for further exploration to assess ecological and pathological impacts on platypus populations.

Genome-Wide Identification of the GRAS Transcription Factor Family in Medicago ruthenica and Expression Analysis Under Drought Stress

The GRAS gene family encodes a group of plant-specific transcription factors essential for regulating plant growth, development and stress responses. While the GRAS gene family has been extensively studied in various plant species, a comprehensive characterization of the GRAS gene family in Medicago ruthenica has not yet been conducted. In this study, a total of 62 MrGRAS gene family members were identified through a comprehensive whole-genome analysis of M. ruthenica, and phylogenetic analysis categorized these 62 genes into 13 distinct groups. Gene structure and conserved domain analysis showed that MrGRAS genes from the same evolutionary branch share similar exon–intron architecture and conserved motifs. A large number of hormone-responsive, growth and development and stress-responsive cis-regulatory elements were detected in the upstream sequences of MrGRAS genes. RT-qPCR analysis showed that drought stress significantly induced the expression of nine selected MrGRAS genes. Overall, this study analyzed the phylogenetic relationships, conserved domains, cis-regulatory elements and expression patterns of the GRAS gene family in M. ruthenica, filling the gap in the identification of the MrGRAS gene family and laying the foundation for functional analysis of the MrGRAS gene family.

Genome-Wide Study of Plant-Specific PLATZ Transcription Factors and Functional Analysis of OsPLATZ1 in Regulating Caryopsis Development of Rice (Oryza sativa L.).

Plant A/T-rich sequence- and zinc-binding protein (PLATZ) is a type of plant-specific zinc-dependent DNA-binding protein that binds to A/T-rich DNA sequences. This family is essential for plant growth, development, and stress response. In this study, 15 OsPLATZs were identified in the rice genome with complete PLATZ-conserved domains by CD-search, similar to those found in angiosperms. Multi-species phylogenetic analysis showed that PLATZs were conserved in photosynthetic organisms, and an evolutionary branch unique to angiosperms was identified among members of the PLATZ family. Fifteen OsPLATZs were represented by five groups, each with distinct characteristics. An analysis of protein structures and sequence motifs showed that OsPLATZs were similar within groups, but varied between them. The expression profile and qRT-PCR results showed that OsPLATZs had distinct expression patterns in different tissues, with some responding to stress induction. Most of the OsPLATZs localized to the nuclei, and were predicted to bind to DNA sequences by AlphaFold3, suggesting that they likely function as conventional transcription factors. We also identified OsPLATZ1, a caryopsis-specific gene that regulates grain filling and caryopsis development in rice. This research lays the foundation for exploring the structural diversity, evolutionary traits, expression profile, and possible roles of PLATZ transcription factors in rice.

The Role of Visual and Chemosensory Signals in Male-Male Aggression of the Cichlid Astatotilapia burtoni.

Sensory processing of communication stimuli is essential for the survival of organisms across all evolutionary branches. Multimodal signaling, the use of multiple sensory systems is crucial in this process, but little is known about the relative importance of different senses used during aggression. We used the African cichlid fish, Astatotilapia burtoni, to test how visual and chemosensory signals in male-male interactions influence behavior. Males of this species exist in a dominance hierarchy, where brightly colored dominant individuals aggressively defend territories for reproductive activities. Focal males were presented with visual and chemosensory signals from other males either alone (unimodal) or together (bimodal). We found that vision is necessary for males to engage in aggressive behaviors such as frontal displays, lateral displays, and border fights. While chemical signals alone did not evoke aggressive behaviors, we find slight reductions of some aggressive behaviors when bimodal stimuli are provided. This study is the first to examine how visual-chemosensory signaling impacts male-male aggressive behavior in A. burtoni and provides insight on how these signaling modalities mediate territorial interactions.

Epidemiological and Molecular Investigation of Feline Panleukopenia Virus Infection in China.

The feline panleukopenia virus (FPV) is a highly contagious virus that affects cats worldwide, characterized by leukopenia, high temperature and diarrhea. Recently, the continuous prevalence and variation of FPV have attracted widespread concern. The aim of this study was to investigate the isolation, genetic evolution, molecular characterization and epidemiological analysis of FPV strains among cats and dogs in China from 2019 to 2024. The 41 FPV strains, including 38 feline strains and 3 canine strains, were isolated from rectal swab samples by inoculating monolayer FK81 cells and performing a plaque purification assay. The viral and hemagglutination titers of these 41 FPV strains were 104.33~106.33 TCID50/0.1 mL and 7.0 log2~9.7 log2, respectively. Based on the complete VP2 gene, the nucleotide homology of these FPV strains was 98.91~100%, and the homology with 24 reference FPV strains from different countries and hosts was 98.85~100%. The phylogenetic analysis revealed that 41 FPV strains were more closely related to the FPV strains of Asian origin (Asian FPV strain group) than those of European and American origin (European and American FPV strain group). Furthermore, 12 mutation sites of the VP2 protein were found in these FPV strains, of which 91 and 232 amino acid sites were previously reported. Moreover, the 91 amino acid site was found to be a positive selection site with the highest dN/dS value in the selection pressure analysis. Importantly, 35 FPV strains with 91S substitution in the VP2 protein (FPV-VP2-91S strains) had formed obvious evolutionary branches in the Asian FPV strain group. The analysis of all available VP2 protein sequences of Chinese FPV strains in the GenBank database showed that the occurrence rate of FPV-VP2-91S strains had been increasing from 15.63% to 100% during 2017~2024, indicating that the FPV-VP2-91S substitution in the VP2 protein was a noteworthy molecular characteristic of the dominant FPV strains in China. These results contribute to a better understanding of their genetic evolution and renew the knowledge of FPV molecular epidemiology.

Genome-Wide Identification and Expression Analysis of the G-Protein Gene Family in Barley Under Abiotic Stresses.

Heterotrimeric G-proteins are fundamental signal transducers highly conserved in plant species, which play crucial roles in regulating plant growth, development, and responses to abiotic stresses. Identification of G-protein members and their expression patterns in plants are essential for improving crop resilience against environmental stresses. Here, we identified eight heterotrimeric G-protein genes localized on four chromosomes within the barley genome by using comprehensive genome-wide analysis. Phylogenetic analysis classified these genes into four distinct subgroups with obvious evolutionary relationships. Further analysis on gene structure, protein motif, and structure indicated that G-proteins within each evolutionary branch exhibited similar exon-intron organization, conserved motif patterns, and structural features. Collinearity analysis showed no significant collinear relationships among those G-protein genes, indicating a unique evolutionary trajectory within barley. Moreover, cis-regulatory elements detected in the upstream sequences of these genes were involved in response to plant hormones and signaling molecules. Expression analyses revealed tissue-specific expression patterns and differential regulation in response to abiotic stresses. The expression patterns of G-protein genes were further validated using a quantitative real-time PCR (qRT-PCR) technique, indicating the reliability of transcriptomic data, as well as special responses to salt, drought, and waterlogging stresses. These findings may provide underlying mechanisms by which G-protein genes participate in salt tolerance of barley, and also highlight candidate genes for potential genetic engineering applications in improving crop resilience to salinity stress.

Genetic Diversity and Population Structure of Five Chinese Local Cattle Breeds in Guizhou Province, China

Background: This project analyzed the genetic diversity and population structure of five local cattle breeds in Guizhou, in order to implement the conservation plan for local cattle breeds and promote their sustainability. Methods: The experiments used a 100K SNP chip to obtain genotype data from the local cattle breeds, which was compared with that of two introduced breeds (Red Angus and Limousin) as controls (N=112). The genetic diversity, LD decay, PCA and phylogenetic tree were analyzed. Result: The effective number of alleles (Ne), nucleotide diversity (Pi) and LD decay rate of the local cattle breeds were higher than those of introduced breeds. The results of PCA, phylogenetic tree, G matrixand genetic distance analyses indicated that the five local breeds were on the same evolutionary branches without obvious clustering. The proportion of polymorphic markers (Pn), genetic diversityand genetic differences in the Weining cattle population was much higher than that of other populations. These findings provide a reference for the genetic structure and efficient protection and utilization of local cattle in Guizhou.

First report of Stenocarpella macrospora causing Diplodia leaf streak disease of maize in Yunnan Province, China.

Maize (Zea mays. L) is cultivated globally as a staple food crop, animal feed, and biofuel. However, persistent diseases in maize have led significant yield losses and a decline in grain quality (Yang et al., 2017). In August 2024, long and narrow lesions were observed on the leaves of maize growing in a field in Luoping County, Qujing City, Yunnan Province, China (24° 94' 87" N, 101° 32' 24" E). The incidence of the disease was investigated to be about 15-30% in different varieties of maize planting areas in seven townships. Initial symptoms appeared as yellow to tan stripes, with the lesions measuring 3 to 48 mm in width and 45 to 560 mm in length. In severe cases, the lesions expanded, leading to complete leaf necrosis, which caused significant damage to maize production. Dark brown sub-epidermal pycnidia and conidia were observed on the necrotic leaf tissue. The pycnidia were globose or sac-like structures, with short and narrow conidiophores. The newly formed conidia are narrow, non-septate, and have transparent cytoplasm. The conidia are subcylindrical to narrowly ellipsoid, straight, curved, or occasionally irregular, measuring 38 to 86 × 7.2 to 12.3 µm. They are 0-3-septate, smooth-walled, pale brown, apex obtuse, base truncate. Therefore, 80 individual conidia were picked under a dissecting microscope, transferred to PDA plates containing antibiotics (10 mg/L rifampicin and ampicillin) followed by incubation at 28°C for 7 days (Fei et al., 2019). After seven days, the colonies of all isolates were turned grey and downy. Based on the maize leaf symptoms and the morphological characteristics of the pycnidia and conidia, the fungus was tentatively identified as Stenocarpella spp. (Luna et al., 2016). To confirm the identity of all isolates, DNA was extracted from 10 randomly selected isolates using the cetyl trimethyl ammonium bromide (CTAB) method. The internal transcribed spacer (ITS) region and the translation elongation factor 1α (TEF-1α) gene were amplified using the primer pairs ITS-1/ITS-4 and EF-1/EF-2, respectively, and then sequenced (Lamprecht et al., 2011). After comparison, the two target sequences of 10 isolates were consistent. BLASTn analysis revealed 99.27% and 100.00% homology with the two target sequences of Stenocarpella macrospora (syn. = Diplodia macrospora) (GQ259128.1, MG934504.1). Based on phylogenetic analysis of two targets, the isolate MS01 was clustered on the same evolutionary branch with S. macrospora. The two target sequences of isolate MS01 was submitted to GenBank under the accession numbers PQ241617.1 and PQ243292.1. To confirm the pathogenicity, a suspension (1 × 106 spores /mL) of isolate MS01 conidial was sprayed onto nine healthy leaves of maize plants in vitro and three pots cultivated with the plants (five plants per pot) in vivo. Plant treated with sterilized water served as control group. The treated plants were incubated at 28°C, 90% relative humidity with alternating light-dark cycles (i.e. 12 h shifts) for 3-10 days. At the same time, the conidial suspension was injected and inoculated onto maize ears, with water used as a blank control. Each treatment contained 3ears, 10 µL of the suspension was applied to each seed treatment. Inoculated leaves developed brown spots that gradually expanded into streak lesions extending toward the ends of the leaves, similar to those observed in the field. Additionally, the maize seeds become also moldy, whereas the control leaves and ears remained symptomless. The same pathogen was re-isolated from the infected leaves and ears, confirming Koch's postulates. Previously, S. macrospora and S. maydis have been reported in many countries across North, Central and South America, Africa, Asia, and Oceania, where maize is grown commercially. These pathogens are known to infect maize ears, stalks, and leaves of maize and also can produce mycotoxins (Romero et al., 2015; Snyman et al., 2011). To our knowledge, S. macrospora causing dry rot and ear rot of maize has been reported in China, but it is mostly found in quarantine at the time of importation (Tai et al., 1979; Shan et al., 2024). This is the first report of S. macrospora causing Diplodia leaf streak disease of maize in Yunnan Province, China. Since Stenocarpella spp. is one of the most destructive diseases of maize globally, the results of this study provide a foundation for developing effective prevention, control, and quarantine strategies for managing this disease.

Analysis of NRAMP genes in the Triticeae reveals that TaNRAMP5 positively regulates cadmium (Cd) tolerance in wheat (Triticum aestivum)

Analysis of NRAMP genes in the Triticeae reveals that TaNRAMP5 positively regulates cadmium (Cd) tolerance in wheat (Triticum aestivum)

Isolation, Identification, and Molecular Evolutionary Analysis of Infectious Hematopoietic Necrosis Virus (IHNV) from Farmed Rainbow Trout in Southwest China

IHNV troubled the salmon breeding industry in China for years, and it often causes large-scale deaths. To study the disease characteristics of IHNV and its epidemiology in China， this study isolated and sequenced the Whole genome of an IHNV strain (IHNV-SCCD) (GenBank No： OQ801357) from farmed diseased rainbow trout in Chengdu and compared 99 IHNV strains from China by mega.11. The IHNV-SCCD strain was isolated by using EPC cells. The complete genome sequence was determined and deposited in the NCBI database. Phylogenetic analysis showed that IHNV-SCCD belongs to the typical J gene group, recently with Sichuan strains. Except for BjLL strain and LN12-17 strain, the remaining 98 strains followed a single evolutionary path. Note that IHNV in Liaoning province is the fastest evolutionary. In addition to the geographical differences, the Xinjiang strains were closely related to the Yunnan strains, and some strains from Beijing were closely related to some strains from Sichuan. There were two evolutionary branches in Gansu and Qinghai; QH17, isolated from Qinghai, was most closely related to SX1704 from Shaanxi. These results suggest that the prevalence of IHNV in China was extremely wide, and the evolution rate was fast. It is necessary to strengthen the monitoring and prevention methods.

Assembly, Annotation, and Comparative Analysis of Mitochondrial Genomes in Trichoderma.

Trichoderma is a widely studied ascomycete fungal genus, including more than 400 species. However, genetic information on Trichoderma is limited, with most species reporting only DNA barcodes. Mitochondria possess their own distinct DNA that plays a pivotal role in molecular function and evolution. Here, we report 42 novel mitochondrial genomes (mitogenomes) combined with 18 published mitogenomes of Trichoderma. These circular mitogenomes exhibit sizes of 26,276-94,608 bp, typically comprising 15 core protein-coding genes (PCGs), 2 rRNAs, and 16-30 tRNAs; however, the number of endonucleases and hypothetical proteins encoded in the introns of PCGs increases with genome size enlargement. According to the result of phylogenetic analysis of the whole mitogenome, these strains diverged into six distinct evolutionary branches, supported by the phylogeny based on 2830 single-copy nuclear genes. Comparative analysis revealed that dynamic Trichoderma mitogenomes exhibited variations in genome size, gene number, GC content, tRNA copy, and intron across different branches. We identified three mutation hotspots near the regions encoding nad3, cox2, and nad5 that caused major changes in the mitogenomes. Evolutionary analysis revealed that atp9, cob, nad4L, nad5, and rps3 have been influenced by positive selection during evolution. This study provides a valuable resource for exploring the important roles of the genetic and evolutionary dynamics of Trichoderma mitogenome in the adaptive evolution of biocontrol fungi.

Whole genome sequencing of two strains of Staphylococcus simulans and their effects on the nitrosomyoglobin formation based on nitric oxide synthase

Whole genome sequencing of two strains of Staphylococcus simulans and their effects on the nitrosomyoglobin formation based on nitric oxide synthase

Discovery and characterization of a novel carlavirus in Ligularia jaluensis plants

Discovery and characterization of a novel carlavirus in Ligularia jaluensis plants