Shiyu Wu

Dr. Shiyu Wu

orcid

Research Focus & Metrics

Academic Career Length

2Years (2025-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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24 September 2025 in Microorganisms
Verified
Journal Article
Open access
PDF file
XNXiaomin Niu
Xiaomin Niu
YWYujie Wu
Yujie Wu
XYXue Yu
Xue Yu
SWShiyu Wu
Shiyu Wu
GZGaosen Zhang
Gaosen Zhang
WZWei Zhang
Wei Zhang
Mining novel Streptomyces species from extreme environments provides a valuable strategy for the discovery of new antibiotics. Here, we report a strain of Streptomyces sp. HMX87T, which exhibits antimicrobial activity and was isolated from desert soil collected in the Tuha Basin, China. Molecular taxonomic analysis revealed that the 16S rRNA gene sequence of strain HMX87T shares the highest similarity with those of Streptomyces bellus CGMCC 4.1376T (98.5%) and Streptomyces coerulescens DSM 40146T (98.43%). In phylogenetic trees, it formed a distinct branch. The average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between strain HMX87T and the above two type strains were below the thresholds of 95% and 70%, respectively, confirming that strain HMX87T represents a novel species within the genus Streptomyces, for which the name Streptomyces hamibioticus sp. nov. is proposed. Physiologically, the strain HMX87T grew at temperatures ranging from 25 to 37 °C, tolerated pH values from 5 to 12, and survived in NaCl concentrations of 0% to 8% (w/v). Chemotaxonomic characterization indicated the presence of LL-diaminopimelic acid (LL-DAP) in the cell wall, ribose and galactose as whole-cell hydrolysate sugars, MK-9(H8) (66.3%) as the predominant menaquinone, and iso-C16:0 (25.94%) and anteiso-C15:0 (16.98%) as the major fatty acids characteristics that clearly distinguish it from its closest relatives. Whole-genome sequencing of strain HMX87T revealed an abundance of genes associated with high-temperature tolerance, salt-alkali resistance, and antimicrobial activity. The genomic features and secondary metabolic potential reflect its adaptation to extreme environmental conditions, including high temperature, salinity, alkalinity, strong ultraviolet radiation, and oligotrophic nutrients. The strain HMX87T has been deposited in the Czech Collection of Microorganisms (CCM 9454T) and the Guangdong Microbial Culture Collection Center (GDMCC 4.391T). The 16S rRNA gene and whole-genome sequences have been submitted to GenBank under accession numbers PQ182592 and PRJNA1206124, respectively.

6 November 2025 in International Journal of Biological Macromolecules
Verified
Journal Article
Closed access
SWShiyu Wu
Shiyu Wu
XCXiming Chen
Ximing Chen
YWYujie Wu
Yujie Wu
XYXue Yu
Xue Yu
XNXiaomin Niu
Xiaomin Niu
PDPaul J. Dyson
Paul J. Dyson

25 March 2026 in Microorganisms
Verified
Journal Article
Open access
PDF file
SWShiyu Wu
Shiyu Wu
XYXue Yu
Xue Yu
YWYujie Wu
Yujie Wu
XNXiaomin Niu
Xiaomin Niu
XCXiming Chen
Ximing Chen
PDPaul J. Dyson
Paul J. Dyson
Acyl-CoA carboxylase (YCC) complexes generate essential starter and extender units for fatty acid and polyketide biosynthesis in Actinobacteria. In Streptomyces coelicolor, two tri-subunit YCC complexes, acetyl-CoA carboxylase (ACC) and propionyl-CoA carboxylase (PCC), have been characterized. However, comparative genomic analyses indicate that β/ε subunits are more diversified than currently appreciated. Here, we identify a previously unrecognized β/ε pair, AccB2 and AccE2, and demonstrate that they assemble with the canonical α subunit to form a functional YCC complex. Both genes are transcribed in vivo, and co-immunoprecipitation (Co-IP) reveals association with AccA1 and AccA2, with AccE2 showing stronger relative association with AccA1-containing pull-downs. In vitro reconstitution confirms carboxylation activity toward acetyl-CoA, propionyl-CoA, and butyryl-CoA, which is strongly dependent on AccE2. These findings expand the YCC repertoire in S. coelicolor and support a modular assembly model in which alternative β/ε combinations contribute to functional diversification of YCC complexes.

4 July 2026 in Antioxidants
Verified
Journal Article
Open access
PDF file
XYXue Yu
Xue Yu
YWYujie Wu
Yujie Wu
WZWei Zhang
Wei Zhang
GZGaosen Zhang
Gaosen Zhang
SWShiyu Wu
Shiyu Wu
GLGuangxiu Liu
Guangxiu Liu
Water-soluble blue microbial pigments with antioxidant activity remain rare, and their host-level protective mechanisms are poorly understood. Here, we identified the genetic basis of blue pigment biosynthesis in the glacier-derived strain Arthrobacter antioxidans QL17. Heavy-ion mutagenesis yielded a hyperpigmented mutant (M157) and a pigment-deficient mutant (M186), and pigment yield was positively associated with hydrogen peroxide (H2O2) tolerance. Genome mining identified MWM45_RS16760 as the sole core biosynthetic gene in a candidate nonribosomal peptide synthetase (NRPS)-like cluster. The encoded protein displayed an adenylation–peptidyl carrier protein–thioesterase (A-PCP-TE) architecture with a predicted L-glutamine-specific A domain, and its transcript abundance paralleled pigment production across the three strains. Phylogenetic analysis placed MWM45_RS16760 in a distinct actinomycete-associated indigoidine-like lineage separated from the characterized BpsA and IndC branches. Heterologous expression in Escherichia coli reconstructed a blue-pigment-producing phenotype, increased H2O2 tolerance, and was accompanied by enhanced extracellular DPPH and ABTS radical-scavenging activities in the culture supernatant. Comparative transcriptomics further revealed coordinated activation of oxidative-stress and proteostasis responses alongside repression of tryptophan biosynthesis and flagellar assembly. These findings identify MWM45_RS16760 as a candidate indigoidine-like NRPS associated with blue pigment biosynthesis and oxidative-stress resistance, with heterologous expression linked to enhanced radical scavenging and coordinated transcriptional reprogramming, expanding the phylogenetic and functional diversity of indigoidine-like systems.