Comparative genomics reveals the dynamic evolutionary history of cement protein genes of barnacles from intertidal to deep‐sea hydrothermal vents DOI Creative Commons
Won‐Kyung Lee, Benny K. K. Chan, Jae‐Yoon Kim

et al.

Molecular Ecology Resources, Journal Year: 2023, Volume and Issue: unknown

Published: Nov. 13, 2023

Abstract Thoracican barnacles are a diverse group of marine organisms for which the availability genome assemblies is currently limited. In this study, we sequenced genomes two neolepadoid species ( Ashinkailepas kermadecensis , Imbricaverruca yamaguchii ) from hydrothermal vents, in addition to intertidal species. Genome sizes ranged 481 1054 Mb, with repetitive sequence contents 21.2% 50.7%. Concordance rates orthologs and heterozygosity were between 82.4% 91.7% 1.0% 2.1%, respectively, indicating high genetic diversity heterozygosity. Based on phylogenomic analyses, revised nomenclature cement genes encoding proteins that not homologous any known proteins. The major gene, CP100A was found all thoracican species, including vent‐associated neolepadoids, hypothesised be essential settlement. Duplicated genes, CP100B CP100C only balanids, suggesting potential functional redundancy or acquisition new functions associated calcareous base. An ancestor CP52 duplicated dynamically among lepadids, pollicipedids multiple copies single scaffold, balanids sequential repeats conserved regions, but no providing insights into gene evolution lineages. This study enhances our understanding adhesion mechanisms thoracicans underwater environments. newly provide opportunities studying their ecology, shedding light adaptation environments, contributing knowledge barnacle biology valuable genomic resources further studies field.

Language: Английский

The genome sequence of the Bay barnacle, Amphibalanus improvisus (Darwin, 1854) DOI Creative Commons
John Bishop,

Christine Wood

Wellcome Open Research, Journal Year: 2025, Volume and Issue: 10, P. 198 - 198

Published: April 22, 2025

We present a genome assembly from specimen of Amphibalanus improvisus (Bay barnacle; Arthropoda; Thecostraca; Balanomorpha; Balanidae). The sequence has total length 763.27 megabases. Most the (91.83%) is scaffolded into 18 chromosomal pseudomolecules. mitochondrial also been assembled, with 15.34 kilobases.

Language: Английский

Citations

0
Whole-genome resequencing reveals genetic differences and the genetic basis of parapodium number in Russian and Chinese Apostichopus japonicus DOI Creative Commons
Chao Guo, Xianglei Zhang, Yuanxin Li

et al.

BMC Genomics, Journal Year: 2023, Volume and Issue: 24(1)

Published: Jan. 16, 2023

Abstract Background Apostichopus japonicus is an economically important species in the global aquaculture industry. Russian A. , mainly harvested Vladivostok region, exhibits significant phenotypic differentiation, including many traits, compared with Chinese owing to differences their habitat. However, both genetic basis for divergence and population structure of are unknown. Result In this study, 210 individuals from seven populations were sampled whole-genome resequencing. The analysis differentiated into two groups. Population analyses indicated that showed a high degree allelic linkage had undergone stronger positive selection populations. Gene ontology terms enriched among candidate genes group involved immunity, such as inflammatory response, antimicrobial peptides, humoral apoptosis. Genome-wide association yielded eight single-nucleotide polymorphism loci significantly associated parapodium number, these located regions genomic differentiation between Russia These SNPs five genes. expression validation revealed three differentially expressed differing number. AJAP08772 AJAP08773 may directly affect production by promoting endothelial cell proliferation metabolism, whereas AJAP07248 indirectly affects participating immune responses. Conclusions This we performed GWAS on found related number parapodium. results provide in-depth understanding China Russia, information subsequent breeding species.

Language: Английский

Citations

7
Comparative analysis of stalked and acorn barnacle adhesive proteomes DOI Creative Commons
Janna N. Schultzhaus, William Judson Hervey, Chris R. Taitt

et al.

Open Biology, Journal Year: 2021, Volume and Issue: 11(8)

Published: Aug. 1, 2021

Barnacles interest the scientific community for multiple reasons: their unique evolutionary trajectory, vast diversity and economic impact-as a harvested food source also as one of most prolific macroscopic hard biofouling organisms. A common, yet novel, trait among barnacles is adhesion, which has enabled sessile adult existence global colonization oceans. Barnacle adhesive primarily composed proteins, but knowledge how proteome varies across tree life unknown due to lack genomic information. Here, we supplement previous mass spectrometry analyses barnacle with recently sequenced genomes compare proteomes Pollicipes pollicipes (Pedunculata) Amphibalanus amphitrite (Sessilia). Although both species contain same broad protein categories, detail differences that exist between these species. The barnacle-unique cement proteins show greatest difference species, although are diminished when amino acid composition glycosylation potential considered. By performing an in-depth comparison distantly related similarities provide roadmap future studies examining sequence-specific identify responsible functional life.

Language: Английский

Citations

16
Pedunculate Cirripedes of the Genus Pollicipes: 25 Years After Margaret Barnes' Review DOI Open Access
Teresa Cruz, David Jacinto, Joana N. Fernandes

et al.

CRC Press eBooks, Journal Year: 2022, Volume and Issue: unknown, P. 19 - 168

Published: Nov. 16, 2022

Twenty-five years ago, Margaret Barnes reviewed the genus Pollicipes published in Oceanography and Marine Biology: An Annual Review.Our review complements updates (1996).An endemic species of Pollicipes, P. caboverdensis, from Cape Verde Islands, has since been described, joining three previously known extant (P.polymerus, northeastern Pacific Ocean, elegans, tropical eastern pollicipes, north-eastern Atlantic Ocean).Most research on polymerus pollicipes.We provide a georeferenced map worldwide distribution Pollicipes.All are harvested throughout their geographic distributions with varying intensity levels management.Phylogeography population genetics new areas developed (1996).We update systematics morphological studies (adult descriptions, cirral form function, adhesion).Various aspects life history (reproduction, larval phase, settlement, recruitment growth), biological assemblages associated post-settlement processes reviewed.Pollution geochemical outlined before detailed appraisal fisheries.Considerable progress made emerging areas, particularly phylogeography, adhesion cement, fisheries management aquaculture.Research gaps highlighted, despite much last quarter-century.

Language: Английский

Citations

9
Ten years of marine evolutionary biology—Challenges and achievements of a multidisciplinary research initiative DOI Creative Commons
Kerstin Johannesson, Erica H. Leder, Carl André

et al.

Evolutionary Applications, Journal Year: 2022, Volume and Issue: 16(2), P. 530 - 541

Published: April 26, 2022

Abstract The Centre for Marine Evolutionary Biology (CeMEB) at the University of Gothenburg, Sweden, was established in 2008 through a 10‐year research grant 8.7 m€ to team senior researchers. Today, CeMEB members have contributed >500 scientific publications, 30 PhD theses and organised 75 meetings courses, including 18 three‐day four conferences. What are footprints CeMEB, how will centre continue play national international role as an important node marine evolutionary research? In this perspective article, we first look back over 10 years activities briefly survey some many achievements CeMEB. We furthermore compare initial goals, formulated application, with what has been achieved, discuss challenges milestones along way. Finally, bring forward general lessons that can be learnt from funding type, also ahead, discussing CeMEB’s used springboard future biology.

Language: Английский

Citations

6
Draft Genome of Tanacetum Coccineum: Genomic Comparison of Closely Related Tanacetum-Family Plants DOI Open Access

Takanori Yamashiro,

Akira Shiraishi, Koji Nakayama

et al.

International Journal of Molecular Sciences, Journal Year: 2022, Volume and Issue: 23(13), P. 7039 - 7039

Published: June 24, 2022

The plant Tanacetum coccineum (painted daisy) is closely related to cinerariifolium (pyrethrum daisy). However, T. produces large amounts of pyrethrins, a class natural insecticides, whereas much smaller these compounds. Thus, comparative genomic analysis expected contribute great deal investigating the differences in biological defense systems, including pyrethrin biosynthesis. Here, we elucidated 9.4 Gb draft genome coccineum, consisting 2,836,647 scaffolds and 103,680 genes. Comparative analyses that cinerariifolium, generated our previous study, revealed distinct features While contains more numerous ribosome-inactivating protein (RIP)-encoding genes, number higher-toxicity type-II RIP-encoding genes larger cinerariifolium. Furthermore, histidine kinases encoded by than suggesting correlation with Moreover, flanking regions biosynthesis-related are also between two plants. These results provide clues elucidation species-specific biodefense regulatory mechanisms underlying production.

Language: Английский

Citations

5
In Vitro Oxidative Crosslinking of Recombinant Barnacle Cyprid Cement Gland Proteins DOI Creative Commons

Robert M. Cleverley,

David Webb, Stuart Middlemiss

et al.

Marine Biotechnology, Journal Year: 2021, Volume and Issue: 23(6), P. 928 - 942

Published: Oct. 29, 2021

Abstract Barnacle adhesion is a focus for fouling-control technologies as well the development of bioinspired adhesives, although mechanisms remain very poorly understood. The barnacle cypris larva responsible surface colonisation. Cyprids release cement from paired glands that contain proteins, carbohydrates and lipids, further compositional details are scant. Several genes coding gland-specific proteins were identified, but only one these showed database homology. This was lysyl oxidase-like protein (lcp_LOX). LOX-like enzymes have been previously identified in proteome adult secretory tissue. We attempted to produce recombinant LOX E. coli , order identify its role cyprid polymerisation. also produced two other gland (lcp3_36k_3B8 lcp2_57k_2F5). lcp2_57k_2F5 contained 56 lysine residues constituted plausible substrate LOX. While significant quantities soluble lcp3_36k_3B8 production stably lcp_LOX failed. A commercially sourced human catalysed crosslinking into putative dimers trimers, this reaction inhibited by lcp3_36k_3B8. Inhibition lcp_LOX:lcp2_57k_2F5 appeared be specific, with no inhibitory effect on oxidation cadaverine results demonstrate possible curing mechanism and, thus, provide basis more complete understanding larval targeted control marine biofouling adhesives niche applications.

Language: Английский

Citations

6
Pervasive conservation of intron number and other genetic elements revealed by a chromosome-level genomic assembly of the hyper-polymorphic nematode Caenorhabditis brenneri DOI
Anastasia Teterina, John H. Willis, Charles F. Baer

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: June 28, 2024

With within-species genetic diversity estimates that span the gambit of seen across entirety animals,

Language: Английский

Citations

0
Draft Genome of Tanacetum Coccineum: Genomic Comparison of Closely Related Tanacetum-Family Plants DOI Creative Commons

Takanori Yamashiro,

Akira Shiraishi, Koji Nakayama

et al.

Research Square (Research Square), Journal Year: 2022, Volume and Issue: unknown

Published: Jan. 13, 2022

Abstract The plant Tanacetum coccineum (painted daisy) is closely related to cinerariifolium (pyrethrum daisy). However, T. produces large amounts of pyrethrins, a class natural insecticides, whereas much smaller these compounds. Thus, comparative genomic analysis expected contribute great deal investigating the difference in biological defense systems, including pyrethrin biosynthesis. Here, we elucidated 9.4-Gb draft genome , consisting 2,836,647 scaffolds and 103,680 genes. Comparative analyses that generated our previous study, revealed distinct features While contains more numerous ribosome-inactivating protein (RIP)-encoding genes, number higher-toxicity type-II RIP-encoding genes larger . Furthermore, histidine kinases encoded by than suggesting correlation with Moreover, flanking regions biosynthesis-related are also between two plants. These results provide clues elucidation species-specific biodefense regulatory mechanisms underlying production.

Language: Английский

Citations

1
Comparative genomics reveals the dynamic evolutionary history of cement protein genes of barnacles from intertidal to deep‐sea hydrothermal vents DOI Creative Commons
Won‐Kyung Lee, Benny K. K. Chan, Jae‐Yoon Kim

et al.

Molecular Ecology Resources, Journal Year: 2023, Volume and Issue: unknown

Published: Nov. 13, 2023

Abstract Thoracican barnacles are a diverse group of marine organisms for which the availability genome assemblies is currently limited. In this study, we sequenced genomes two neolepadoid species ( Ashinkailepas kermadecensis , Imbricaverruca yamaguchii ) from hydrothermal vents, in addition to intertidal species. Genome sizes ranged 481 1054 Mb, with repetitive sequence contents 21.2% 50.7%. Concordance rates orthologs and heterozygosity were between 82.4% 91.7% 1.0% 2.1%, respectively, indicating high genetic diversity heterozygosity. Based on phylogenomic analyses, revised nomenclature cement genes encoding proteins that not homologous any known proteins. The major gene, CP100A was found all thoracican species, including vent‐associated neolepadoids, hypothesised be essential settlement. Duplicated genes, CP100B CP100C only balanids, suggesting potential functional redundancy or acquisition new functions associated calcareous base. An ancestor CP52 duplicated dynamically among lepadids, pollicipedids multiple copies single scaffold, balanids sequential repeats conserved regions, but no providing insights into gene evolution lineages. This study enhances our understanding adhesion mechanisms thoracicans underwater environments. newly provide opportunities studying their ecology, shedding light adaptation environments, contributing knowledge barnacle biology valuable genomic resources further studies field.

Language: Английский

Citations

0