Comparative transcriptome analysis on candidate genes associated with fruiting body growth and development in Lyophyllum decastes DOI Creative Commons
Shanwen Ke,

Lingqiang Ding,

Xin Niu

et al.

PeerJ, Journal Year: 2023, Volume and Issue: 11, P. e16288 - e16288

Published: Oct. 26, 2023

Lyophyllum decastes is a mushroom that highly regarded for its culinary and medicinal properties. Its delectable taste texture make it popular choice consumption. To gain deeper understanding of the molecular mechanisms involved in development fruiting body L. decastes, we used RNA sequencing to conduct comparative transcriptome analysis. The analysis encompassed various developmental stages, including vegetative mycelium, primordial initiation, young body, medium-size mature stages. A range 40.1 60.6 million clean reads were obtained, de novo assembly generated 15,451 unigenes with an average length 1,462.68 bp. Functional annotation transcriptomes matched 76.84% known proteins available at least one database. gene expression revealed significant number differentially expressed genes (DEGs) between each stage. These annotated subjected Gene Ontology Kyoto Encyclopedia Genes Genomes analyses. Highly also identified, those encode extracellular enzymes, transcription factors, signaling pathways. accuracy RNA-Seq DEG analyses was validated using quantitative PCR. Enzyme activity experiments demonstrated enzymes exhibited differences across different This study provides valuable insights into underlie decastes.

Language: Английский

Complete mitochondrial genomes of edible mushrooms: features, evolution, and phylogeny DOI
Umar Zeb, Tariq Aziz, Azizullah Azizullah

et al.

Physiologia Plantarum, Journal Year: 2024, Volume and Issue: 176(3)

Published: May 1, 2024

Abstract Edible mushrooms are an important food source with high nutritional and medicinal value. They a useful for studying phylogenetic evolution species divergence. The exploration of the evolutionary relationships among these conventionally involves analyzing sequence variations within their complete mitochondrial genomes, which range from 31,854 bp ( Cordyceps militaris ) to 197,486 Grifolia frondosa ). study genomes edible has emerged as critical field research, providing insights into fungal genetic makeup, evolution, relationships. This review explores genome structures various mushroom species, highlighting unique features adaptations. By robust frameworks constructed elucidate lineage Furthermore, different DNA presents novel opportunities enhancing cultivation biotechnology applications. genomic essential improving agricultural practices ensuring security through improved crop productivity, disease resistance, qualities. current knowledge about is summarized in this review, emphasising significance both scientific research practical applications bioinformatics medicine.

Language: Английский

Citations

8
Morpho-phylogenetic analyses of two novel edible mushrooms from China and a mini review of Lyophyllum (Agaricales, Lyophyllaceae) cultivation and bioactivities DOI Creative Commons
Song-Ming Tang, Feng-Ming Yu, Samantha C. Karunarathna

et al.

MycoKeys, Journal Year: 2025, Volume and Issue: 112, P. 307 - 334

Published: Jan. 23, 2025

Lyophyllum plays an important role in the natural ecosystem and has significant economic value. Some species of this genus have been cultivated Asia, America, Europe. This study describes four edible Lyophyllum, two which were newly discovered. Lyophyllumedulis a dark grayish orange pileus, upper part stipe, globose, subglobose to broadly ellipsoid basidiospores, while L.sinense gray-orange when injured points lines on stipe surface, quadrangular fusiform basidiospores. Molecular phylogenetic analyses using internal transcribed spacer ITS1-5.8S-ITS2 ribosomal RNA (ITS), large subunit (LSU), second-largest polymerase II (rpb2), translation elongation factor 1-alpha (tef1-α) indicated that L.edulis is related L.shimeji, L.heimogu, L.decastes, affinity L.bulborhizum L.nigrum. We also summarize cultivation techniques species, L.shimeji L.decastes.

Language: Английский

Citations

0
Genomic analysis and metabolic pathway mining of Phallus cremeo-ochraceus DOI
You-Qi Nie,

Yiguo He,

Zhifeng Zhao

et al.

Gene, Journal Year: 2025, Volume and Issue: unknown, P. 149424 - 149424

Published: March 1, 2025

Language: Английский

Citations

0
Accumulation and translocation of lead and cadmium in Lyophyllum decastes DOI

Guozhu Huang,

Yali Xi,

Fei Zang

et al.

Environmental Geochemistry and Health, Journal Year: 2025, Volume and Issue: 47(5)

Published: April 12, 2025

Language: Английский

Citations

0
Genomic and Transcriptomic Analysis to Explore the Biological Characteristics of Cyclocybe chaxingu DOI Creative Commons
Qiang Yang, Haiyan Song, Ge Su

et al.

Horticulturae, Journal Year: 2025, Volume and Issue: 11(4), P. 409 - 409

Published: April 11, 2025

Cyclocybe chaxingu is an edible wood-decaying fungus widely cultivated in China, valued for its nutritional and economic significance. Despite importance, molecular genetic breeding studies on C. have been limited by the lack of comprehensive genomic information. In this study, we performed whole-genome sequencing type strain JAUCC1847 first time conducted extensive transcriptomic analyses. We assembled a high-quality genome C27, with total length 50.79 Mb GC content 50.90%. Comparative analysis revealed close evolutionary relationship species from genera Agrocybe Stropharia, suggesting recent common ancestor. The high ANI values between chaxingu, cylindracea indicate phylogenetic relationship, raising possibility synonymy among these strains. Genome annotation identified rich array 573 carbohydrate-active enzymes, highlighting metabolic diversity particularly lignocellulose degradation. Comprehensive A B mating-type locus distribution structural characteristics genes, providing crucial information further reproductive biology species. Transcriptomic distinct gene expression patterns mycelia, stipe, cap, reflecting their functional specialization. GO KEGG enrichment analyses demonstrated stipe’s association integrity transport, while cap linked to activity, regulation, stress responses, DNA repair. These insights clarify taxonomic status supporting recognition within genus valuable resource future research programs.

Language: Английский

Citations

0
TMT-based proteomic and transcriptomic analysis reveal new insights into heat stress responsive mechanism in edible mushroom Grifola frondosa DOI

Xie Hongyan,

Luzhang Wan,

Jiandong Han

et al.

Scientia Horticulturae, Journal Year: 2023, Volume and Issue: 323, P. 112542 - 112542

Published: Oct. 5, 2023

Language: Английский

Citations

7
The development and nutritional quality of Lyophyllum decastes affected by monochromatic or mixed light provided by light-emitting diode DOI Creative Commons
Xiaoli Chen, Yihan Liu, Wenzhong Guo

et al.

Frontiers in Nutrition, Journal Year: 2024, Volume and Issue: 11

Published: May 27, 2024

Edible fungi has certain photo-sensitivity during the mushroom emergence stage, but there been few relevant studies on responses of Lyophyllum decastes to different light quality. L. were planted in growth chambers with qualities that were, respectively, white (CK), monochromatic red (R), blue (B), mixed and (RB), mixture far-red (FrB). The was investigated by analyzing characteristics, nutritional quality, extracellular enzymes as well photoreceptor genes exposed treatments. results showed R led mycelium degeneration, fungal skin inactivation failure primordial formation . stipe length, diameter, pileus diameter weight fruiting bodies RB significantly increased 8.0, 28.7, 18.3, 58.2% compared control ( p < 0.05). B decreased length body, a decrease 8.5 20.2% Increased color indicators deepened simulated detected treated FrB relative control. Meanwhile, expression levels such WC-1 , WC-2 Cry-DASH up-regulated Additionally, contents crude protein polysaccharide 26.5 9.4% control, while those stipes 5.3 58.8%, respectively. activities enzyme cellulase, hemicellulase, laccase, manganese peroxidase, lignin peroxidase amylase significant subjected 0.05), which may promote degradation culture materials. On whole, largest volume highest nutrients all RB. study provided theoretical basis for regulation environment industrial production high quality

Language: Английский

Citations

1
Insights into the evolution and mechanisms of response to heat stress by whole genome sequencing and comparative proteomics analysis of the domesticated edible mushroom Lepista sordida DOI Creative Commons
Yan‐Jiao Zhang, Chengzhi Mao, Xuyang Liu

et al.

Mycology&#58 An International Journal on Fungal Biology, Journal Year: 2024, Volume and Issue: 16(1), P. 324 - 343

Published: July 7, 2024

Lepista sordida is a valuable edible mushroom rich in natural bioactive compounds. In the present study, high-quality whole-genome of domesticated strain L. was sequenced, revealing 40.67 Mb genome 13 contigs. Phylogenetic analysis revealed that evolutionarily closely related to Lyophyllum decastes and Hypsizygus marmoreus. Heat stress has significant effect on yield quality mushrooms, but molecular basis for this poorly understood sordida. A label-free comparative proteomic performed under different heat conditions. The growth mycelia inhibited, nuclear apoptosis occurred stress. Ca2+ MAPK signaling pathways were found be involved signal transduction. It hypothesized expression various shock proteins plays crucial role response addition, components ubiquitin-proteasome system thioredoxin upregulated, preventing accumulation misfolded possibly supporting summary, these results provide fundamental insight into evolution stress-responsive mechanisms may facilitate breeding heat-tolerant strains artificial cultivation.

Language: Английский

Citations

1
Growth Simulation of Lyophyllum decastes and Coprinus comatus and Their Influencing Factors in a Forested Catchment DOI Open Access

Guozhu Huang,

Fei Zang, Chuanyan Zhao

et al.

Forests, Journal Year: 2024, Volume and Issue: 15(9), P. 1552 - 1552

Published: Sept. 3, 2024

Wild edible mushrooms are an important food source globally and have a crucial role in forest ecosystems. However, there is limited research on the growth characteristics contribution of agronomic traits to biomass, environmental factors affecting mushroom limited. This study was conducted Qilian Mountains, China, focused investigating patterns Lyophyllum decastes Coprinus comatus. The results revealed that these followed logical curve. By calculating model parameters, we obtained maximum daily height (PH), pileus diameter (PD), cluster perimeter (CP) L. 5th, 7th, 7th days, respectively, with values 0.55 cm d−1, 0.54 4.54 respectively. PH, length (PL), PD C. comatus appeared 3rd day, 2nd day observation, identified near-surface relative humidity, air rainfall as primary influencing growth, indicated by Pearson’s correlation analysis, redundancy analysis (RDA), multiple linear stepwise regression. Additionally, land surface temperature were also growth. utilizing random regression this PH stipe (SD) most biomass. Overall, offers insights for industrial cultivation basic fungal research.

Language: Английский

Citations

1
Whole-Genome Sequence Analysis of Flammulina filiformis and Functional Validation of Gad, a Key Gene for γ-Aminobutyric Acid Synthesis DOI Creative Commons
Wenyun Li, Junjun Shang, Dapeng Bao

et al.

Journal of Fungi, Journal Year: 2024, Volume and Issue: 10(12), P. 862 - 862

Published: Dec. 12, 2024

Flammulina filiformis is one of the widely produced edible fungi worldwide. It rich in γ-aminobutyric acid (GABA), a non-protein amino with important physiological functions humans. To investigate key genes GABA metabolic pathway F. filiformis, we isolated monokaryon Fv-HL23-1 from factory-cultivated strain Fv-HL23 and then sequenced assembled genome using PacBio Sequel Illumina NovaSeq sequencing platforms. The results showed that comprised 140 scaffolds total length 40.96 Mb, GC content 49.62%, an N50 917,125 bp, 14,256 protein-coding genes. Phylogenetic analysis based on whole revealed close evolutionary relationship Armillaria mellea, Lentinula edodes, Schizophyllum commune. A 589 carbohydrate-active enzymes were identified Fv-HL23-1, suggesting its strong lignocellulose degradation ability, 108 CYP450 gene family members identified, such as resistance to stress, secondary metabolite synthesis, growth development. proteins glutamate decarboxylase 1 (Ff-GAD1) 2 (Ff-GAD2), which may be responsible for by protein alignment. Molecular docking Ff-GAD2 have better catalytic activity than Ff-GAD1. verify function Ff-gad2, heterologous expression mycelia mononuclear Hypsizigus marmoreus was analyzed. Compared wild type, increased 85.40–283.90%, rate 9.39 ± 2.35%, fresh weight 18.44 7.57%. play role synthesis. In addition, full-length Ff-gad2 7.96 1.39 times compared exon level H. mycelia, intron contribute Ff-GAD2. Based whole-genome sequencing, analyzed enzyme system related life activities focusing Ff-GAD, synthesis pathway. lay foundation elucidating metabolism developing targeted breeding strategies GABA-producing fungi.

Language: Английский

Citations

1