Co-option of an Astacin Metalloprotease Is Associated with an Evolutionarily Novel Feeding Morphology in a Predatory Nematode DOI Creative Commons

Yuuki Ishita,

Ageha Onodera,

Taisuke Ekino

et al.

Molecular Biology and Evolution, Journal Year: 2023, Volume and Issue: 40(12)

Published: Dec. 1, 2023

Abstract Animals consume a wide variety of food sources to adapt different environments. However, the genetic mechanisms underlying acquisition evolutionarily novel feeding morphology remain largely unknown. While nematode Caenorhabditis elegans feeds on bacteria, satellite species Pristionchus pacificus exhibits predatory behavior toward other nematodes, which is an habit. Here, we found that astacin metalloprotease Ppa-NAS-6 required for killing by P. pacificus. Ppa-nas-6 mutants were defective in predation-associated characteristics, specifically tooth morphogenesis and movement during predation. Comparison expression patterns rescue experiments nas-6 C. suggested alteration spatial NAS-6 may be vital acquiring predation-related traits. Reporter analysis promoter revealed was caused evolutionary changes cis- trans-regulatory elements. This study suggests co-option involved morphology.

Language: Английский

Unveiling an ancient whole-genome duplication event in Stentor, the model unicellular eukaryotes DOI
Weibo Zheng, Chao Li,

Zhaorui Zhou

et al.

Science China Life Sciences, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 8, 2025

Language: Английский

Citations

2
A mitochondrial pentatricopeptide repeat protein enhances cold tolerance by modulating mitochondrial superoxide in rice DOI Creative Commons

Xiaofeng Zu,

Lilan Luo, Zhen Wang

et al.

Nature Communications, Journal Year: 2023, Volume and Issue: 14(1)

Published: Oct. 25, 2023

Cold stress affects rice growth and productivity. Defects in the plastid-localized pseudouridine synthase OsPUS1 affect chloroplast ribosome biogenesis, leading to low-temperature albino seedlings accumulation of reactive oxygen species (ROS). Here, we report an ospus1-1 suppressor, sop10. SOP10 encodes a mitochondria-localized pentatricopeptide repeat protein. Mutations impair intron splicing nad4 nad5 transcripts decrease RNA editing efficiency nad2, nad6, rps4 transcripts, resulting deficiencies mitochondrial complex I, thus ROS generation rescuing phenotype. Overexpression different compartment-localized superoxide dismutases (SOD) genes reverses over-accumulation phenotypes various degrees, with Mn-SOD reversing best. Mutation indica varieties enhances cold tolerance lower levels. We find that plays key role responses, identify modulating factor, informing efforts improve tolerance.

Language: Английский

Citations

23
Transcriptome Expression Profiling Reveals the Molecular Response to Salt Stress in Gossypium anomalum Seedlings DOI Creative Commons
Huan Yu, Qi Guo,

Wei Ji

et al.

Plants, Journal Year: 2024, Volume and Issue: 13(2), P. 312 - 312

Published: Jan. 20, 2024

Some wild cotton species are remarkably tolerant to salt stress, and hence represent valuable resources for improving tolerance of the domesticated allotetraploid Gossypium hirsutum L. Here, we first detected salt-induced stress changes in physiological biochemical indexes G. anomalum, a African diploid species. Under 350 mmol/L NaCl treatment, photosynthetic parameters declined significantly, whereas hydrogen peroxide (H2O2) malondialdehyde (MDA) contents increased. Catalase (CAT), superoxide dismutase (SOD), peroxidase (POD) activity proline (PRO) content also significantly increased, reaching peak values at different stages stress. We used RNA-Seq characterize 15,476 differentially expressed genes anomalum roots after 6, 12, 24, 72, 144 h Gene Ontology enrichment analysis revealed these be related sequence-specific DNA iron ion binding oxidoreductase, peroxidase, antioxidant, transferase activity; meanwhile, top enriched pathways from Kyoto Encyclopedia Genes Genomes database were plant hormone signal transduction, phenylpropanoid biosynthesis, fatty acid degradation, carotenoid zeatin starch sucrose metabolism, MAPK signaling. A total 1231 transcription factors found response representing ERF, MYB, WRKY, NAC, C2H2, bZIP, HD-ZIP families. Nine candidate validated by quantitative real-time PCR their expression patterns consistent with data. These data promise advance our understanding molecular spp., potential value breeding applications.

Language: Английский

Citations

8
Parents greater influenced the fecal microbiome and resistome of ibis nestlings than artifical breeding environment contamination DOI
Jing Yang,

Zekun Xu,

Xueyan Wang

et al.

Environmental Research, Journal Year: 2025, Volume and Issue: unknown, P. 121057 - 121057

Published: Feb. 1, 2025

Language: Английский

Citations

1
Genomic evidence for low genetic diversity but purging of strong deleterious variants in snow leopards DOI Creative Commons
Lin Yang, Hongjian Jin, Qi‐En Yang

et al.

Genome biology, Journal Year: 2025, Volume and Issue: 26(1)

Published: April 14, 2025

Long-term persistence of species with low genetic diversity is the focus widespread attention in conservation biology. The snow leopard, Panthera uncia, a big cat from high-alpine regions Asia. However, its subspecies taxonomy, evolutionary history, potential, and survival strategy remain unclear, which greatly hampers their conservation. We sequence high-quality chromosome-level genome leopard genomes 52 wild leopards. Population genomics reveal existence two large lineages global leopards, northern southern lineages, supported by biogeography. Last Glacial Maximum drove divergence lineages. Microclimate differences rivers between western central Himalayas likely maintain differentiation EPAS1 positively selected lineage almost fixed amino acid substitutions shows an increased allele frequency elevation. Compared to lineage, exhibits lower level genomic higher levels inbreeding load, consistent recent population decline. find that leopards have extremely than other Carnivora species; however, strong deleterious mutations been effectively purged historical bottlenecks inbreeding, may be vital mechanism for viability. Our findings highlight importance unveiling both burden threatened species.

Language: Английский

Citations

1
Gut microbiome as a key monitoring indicator for reintroductions of captive animals DOI Open Access
Guangping Huang,

Dunwu Qi,

Zhisong Yang

et al.

Conservation Biology, Journal Year: 2023, Volume and Issue: 38(1)

Published: Aug. 31, 2023

Reintroduction programs seek to restore degraded populations and reverse biodiversity loss. To examine the hypothesis that gut symbionts could be used as an indicator of reintroduction success, we performed intensive metagenomic monitoring over 10 years characterize ecological succession adaptive evolution captive giant pandas reintroduced wild. We collected 63 fecal samples from 3 individuals 22 9 wild 96 publicly available another individuals. By microbial composition analysis, identified community clusters microbiome (here termed enterotypes) with interenterotype was closely related process. Each enterotypes based on significant variation in levels 1 genera: Clostridium, Pseudomonas, Escherichia. The enterotype This gradually replaced by Clostridium during wild-training process, which turn Pseudomonas resembled pandas, conversion wildness a successful reintroduction. also isolated strain protegens enterotype, previously reported free-living microbe, found its within-host contributed host dietary adaptation Monitoring structure provides novel, noninvasive tool can individual

Language: Английский

Citations

16
PandaGUT provides new insights into bacterial diversity, function, and resistome landscapes with implications for conservation DOI Creative Commons
Guangping Huang, Wenyu Shi, Le Wang

et al.

Microbiome, Journal Year: 2023, Volume and Issue: 11(1)

Published: Oct. 7, 2023

Abstract Background The gut microbiota play important roles in host adaptation and evolution, but are understudied natural population of wild mammals. To address adaptive evolution improve conservation efforts threatened mammals from a metagenomic perspective, we established high-quality microbiome catalog the giant panda (pandaGUT) to resolve diversity, functional, resistome landscapes using approximately 7 Tbp long- short-read sequencing data 439 stool samples. Results pandaGUT comprises 820 metagenome-assembled genomes, including 40 complete closed 64.5% which belong species that have not been previously reported, greatly expanding coverage most prokaryotic lineages. contains 2.37 million unique genes, with 74.8% possessing open read frames, facilitating future mining microbial functional potential. We identified three enterotypes across captive populations characterized by Clostridium , Pseudomonas Escherichia respectively. found pandas exhibited genetic-specific structures functions, suggesting host-gut phylosymbiosis, while cohorts encoded more multi-drug resistance genes. Conclusions Our study provides largely untapped resources for biochemical biotechnological applications as well potential intervention avenues via rational manipulation diversity reducing antibiotic usage management wildlife.

Language: Английский

Citations

12
Adaptation in Unstable Environments and Global Gene Losses: Small but Stable Gene Networks by the May–Wigner Theory DOI Creative Commons
Shaohua Xu, Shao Shao, Xiao Feng

et al.

Molecular Biology and Evolution, Journal Year: 2024, Volume and Issue: 41(4)

Published: March 19, 2024

Abstract Although gene loss is common in evolution, it remains unclear whether an adaptive process. In a survey of seven major mangrove clades that are woody plants the intertidal zones daily environmental perturbations, we noticed they generally evolved reduced numbers. We then focused on largest clade Rhizophoreae and observed continual set reduction each eight species. A great majority losses concentrated interaction processes, presumably to cope with constant fluctuations tidal environments. Genes general processes for largely retained. particular, fewer found physiological traits such as viviparous seeds, high salinity, tannin content. Given broad genome reductions, propose May–Wigner theory (MWT) system stability possible mechanism. MWT, most effective solution buffering perturbations reduce size (or weaken total genic interactions). Mangroves unique immovable inhabitants compound environments land–sea interface, where gradients (such salinity) fluctuate constantly, often drastically. Extending MWT regulatory network (GRN), computer simulations transcriptome analyses support stabilizing effects smaller sets mangroves vis-à-vis inland plants. summary, show significance plants, including specific role promoting phenotype innovation GRN unstable predicted by MWT.

Language: Английский

Citations

5
Masting promotes transformation from predation to mutualism in an oak-weevil-rodent system DOI
Hongmao Zhang, Hongyu Niu, Michael A. Steele

et al.

Science China Life Sciences, Journal Year: 2024, Volume and Issue: 67(7), P. 1514 - 1524

Published: March 25, 2024

Language: Английский

Citations

5
Evolutionary genomics of camouflage innovation in the orchid mantis DOI Creative Commons
Guangping Huang,

Lingyun Song,

Xin Du

et al.

Nature Communications, Journal Year: 2023, Volume and Issue: 14(1)

Published: Aug. 10, 2023

Abstract The orchid mantises achieve camouflage with morphological modifications in body color and pattern, providing an interesting model for understanding phenotypic innovation. However, a reference genome is lacking the order Mantodea. To unveil mechanisms of plant-mimicking coloration patterns, we performed de novo assembly two chromosome-level genomes mantis its close relative, dead leaf mantis. Comparative genomic analysis revealed that Scarlet gene plays important role synthesis xanthommatin, pigment coloration. Combining developmental transcriptomic genetic engineering experiments, found cuticle was essential component ‘petal-like’ enlargement, specific expression ventral femur controlled by Wnt signaling. prolonged Ultrabithorax (Ubx) accompanied femoral expansion suggested Ubx determines leg remodeling early stage. We also evidence evolution Trypsin family insectivory adaptation ecdysone-dependent sexual dimorphism size. Overall, our study presents new catalogs reveals evolutionary underlying unique praying mantis, insights into innovation adaptation.

Language: Английский

Citations

11