A5053480989- Coral and Marine Ecosystems Studies
- Aquaculture disease management and microbiota
- Marine Sponges and Natural Products
- Ichthyology and Marine Biology
- Marine and coastal plant biology
- Genomics and Phylogenetic Studies
- Cephalopods and Marine Biology
- Parasite Biology and Host Interactions
- Marine and fisheries research
- Paleontology and Stratigraphy of Fossils
- Morphological variations and asymmetry
- Marine Biology and Ecology Research
- Marine Bivalve and Aquaculture Studies
- Marine Biology and Environmental Chemistry
- Evolution and Paleontology Studies
- Single-cell and spatial transcriptomics
- Coastal wetland ecosystem dynamics
- Water Quality Monitoring Technologies
- Cancer Research and Treatments
- Studies on Chitinases and Chitosanases
- Ocean Acidification Effects and Responses
- Gene expression and cancer classification
- Physiological and biochemical adaptations
- Marine Ecology and Invasive Species
- Paleontology and Evolutionary Biology
State Key Laboratory of Digital Medical Engineering
2018-2025
Southeast University
2018-2025
Shanxi Medical University
2025
BioElectronics (United States)
2019-2024
Google (United States)
2018
Coral reef ecosystems face escalating threats from anthropogenic global climate challenges, leading to frequent bleaching events. A key issue in coral transplantation is the inability of fragments rapidly grow sizes that can resist environmental pressures. The observation accelerated growth during early stages regeneration provides new insights for addressing this challenge. To investigate underlying molecular mechanisms, we study fast-growing stony Acropora muricata. Using single-cell RNA...
Abstract Colonies are the basic geometric building blocks of coral reefs. However, forming regulations both colonies and reefs still not understood adequately. Therefore, in this study, we reconstructed 25 samples using high‐resolution micro‐computed tomography to investigate growth patterns parameters. Our skeleton canal reconstructions revealed characteristics different species, further visualized axes rings understand directions. We drew a grayscale map calculated void ratios ascertain...
Coral reefs are formed by living polyps, and understanding the dynamic processes behind is crucial for marine ecosystem restoration. However, these still unclear because growth budding patterns of polyps poorly known. Here, we investigate pattern a widely distributed reef-building coral Pocillopora damicornis from Xisha Islands using high-resolution computed tomography. We examine corallites in single corallum species detail, to interpret budding, growth, distribution reconstruct this...
The digestive methods employed by amphioxus ( Branchiostoma )—both intracellular phagocytic digestion and extracellular digestion—have been discussed since 1937. Recent studies also show that epithelial cells lining the tract can express many immune genes. Here, in belcheri , using a special tissue fixation method, we some cells, especially those large diverticulum protruding from gut tube, phagocytize food particles directly, rely on this kind of to obtain energy throughout all stages its...
Mollusca is the second largest animal phylum and represents one of most evolutionarily successful groups.
As the extant representatives of basal chordate lineage, amphioxi (including genera Branchiostoma , Asymmetron and Epigonichthys ) play important roles in tracing state ancestry. Previous studies have reported that members species similar morphological phenotypic characteristics, but contrast, there are high levels genetic polymorphisms populations. Here, we resequenced 20 belcheri genomes to an average depth approximately 12.5X using Illumina HiSeq 2000 platform. In this study, over 52...
Corals should make excellent models for cross-kingdom research because of their natural animal-photobiont holobiont composition, yet a lack studies and experimental data restricts use. Here we integrate new full-length transcriptomes small RNAs four common reef-building corals with the published Cladocopium genomes to gain deeper insight into gene regulation in coral-Symbiodiniaceae holobionts. Eleven novel Symbiodiniaceae miRNAs get identified, enrichment results target genes show that they...
Abstract Background Reef-building corals play an important role in the marine ecosystem, and analyzing their proteomes from a structural perspective will exert positive effects on exploring biology. Here we integrated mass spectrometry with newly published ColabFold to obtain digital of dominant reef-building corals. Results Of 8,382 homologous proteins Acropora muricata, Montipora foliosa, Pocillopora verrucosa identified, 8,166 received predicted structures after about 4,060 GPU hours...
Introduction: Coral reefs, among the most invaluable ecosystems in world, face escalating threats from climate change and anthropogenic activities. To decipher genetic underpinnings of coral adaptation resilience, we undertook comprehensive transcriptome profiling two emblematic species, Montipora foliosa capricornis, leveraging PacBio Iso-Seq technology. These species were strategically selected for their ecological significance taxonomic proximity within Anthozoa class. Methods: Our study...
Since the last century, episodes of coral reef bleaching and mortality have occurred almost annually in tropical or subtropical seas. When temperature exceeds tolerant limit a coral–zooxanthellae holobiont, it induces physiological stress disrupts vulnerable fine-tuned balance between two partners, leading to bleaching. The gene expression profiles scleractinian its symbiotic zooxanthellae can offer important information with which decipher this balanced relationship at functional level...
Coral transcriptomic data largely rely on short-read sequencing, which severely limits the understanding of coral molecular mechanisms and leaves many important biological questions unresolved. Here, we sequence full-length transcriptomes four common frequently dominant reef-building corals using PacBio Sequel II platform. We obtain information reported gene functions, structures, expression profiles. Among them, a comparative analysis biomineralization-related genes provides insights into...
Coral-zooxanthellae holobionts are one of the most productive ecosystems in ocean. With global warming and ocean acidification, coral facing unprecedented challenges. To save ecosystems, we need to understand symbiosis coral-zooxanthellae. Although some Scleractinia (stony corals) transcriptomes have been sequenced, reliable full-length transcriptome is still lacking due short-read length second-generation sequencing uncertainty assembly results. Herein, PacBio Sequel II technology polished...
Li, Y.; Han, T.; Wang, G.; Chen, J.; He, C., and Lu, Z., 2020. Coral growth monitoring in 24 weeks with laboratory auto-calibration balance system. In: Yang, D.F. H. (eds.), Recent Advances Marine Geology Environmental Oceanography. Journal of Coastal Research, Special Issue No. 108, pp. 288–293. Coconut Creek (Florida), ISSN 0749-0208.Reef-building corals play key roles maintaining marine biodiversity forming coral reefs. Understanding the early is crucial at present for experiments...
One goal of expression data analysis is to discover the biological significance or function genes that are differentially expressed. Gene Set Enrichment (GSE) one main tools for mining has been widely used. However, every gene expressed in a cell valuable information GSE single-cell RNA sequencing (scRNA-SEQ) and not should be discarded.We developed functional matrix (FEM) algorithm utilize from all genes. The converts (GEM) into FEM. FEM can provide insight on single cell. It also integrate...
Acroporidae and Pocilloporidae are the predominant reef-building corals of Indo-Pacific coral reefs. Coral colony is basic geometric construction reef, while sustained formation their calcium carbonate skeletons heart healthy However, reef forming strategies in growth still obscure. In this study, we reconstructed 32 representative samples using high-resolution computed tomography created canal networks inside skeletal data to investigate regulation related parameters. Acropora Montipora...
Abstract The coral reef ecosystem faces increasing threats under global climate challenges. One of the core issues is inability fragments to quickly grow into a size that can resist environmental pressures in transplantation. observation accelerated growth during early stages regeneration provides new insights for addressing this challenge. To investigate related molecular mechanisms, our study focused on fast-growing stony Acropora muricata (with chromosome-scale reference genome)....
Abstract Background Reef-building corals are critical species for sustaining coral reefs and highly threatened by global climate change. However, relevant transcriptomic data largely rely on short-read sequencing, which severely limits the understanding of molecular mechanisms leaves many important biological questions unresolved. Results We sequenced full-length transcriptomes four common frequently dominant reef-building corals, including two Robusta clade species, Pocillopora damicornis...
The vertebrate body plan is thought to be derived during the early Cambrian from a worm-like chordate ancestor. While all three germ layers were clearly involved in this innovation, role of endoderm remains elusive. According hourglass model, optimal window for investigating evolution endoderm-derived structures cephalochordate development Spemann's organizer stage opening mouth (Stages 1-7, described herein). Regulatory gene expression, examined these stages, illustrate that patterned into...
Abstract Reef-building corals play an important role in the marine ecosystem, and analyzing their proteomes from a structural perspective will exert positive effects on exploring biology. Here we integrated mass spectrometry with newly published ColabFold to obtain digital of dominant reef-building corals. 8,382 proteins co-expressed A. muricata, M. foliosa P. verrucosa were identified, then 8,166 them got predicted structures after around 4,060 GPU hours computation. The resulting dataset...
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Coral reefs are cornerstone of global marine ecosystems, providing shelter for over one third organisms. Currently, along with warming and increased human activities, large-scale decline coral has become a severe ecosystem problem, now quantitative detection heat shock protein (HSP) gene by nanotechnology research hotspot in this field. However, Acropora muricata is the most important dominant reef-building corals Indo- Pacific region, encounter an urgent obstacle on HSP nanoscience lack...