Integrative and Comparative Biology最新文献

{"title":"Acquisition of polymorphism in the chordate doliolids.","authors":"C J Pickett, Joseph Ryan, Bradley Davidson","doi":"10.1093/icb/icae101","DOIUrl":"10.1093/icb/icae101","url":null,"abstract":"<p><p>In polymorphic organisms, a single genome is deployed to program numerous, morphologically distinct body plans within a colony. This complex life history trait has evolved independently within a limited subset of animal taxa. Reconstructing the underlying genetic, cellular, and developmental changes that drove the emergence of polymorphic colonies represents a promising avenue for exploring diversifying selection and resulting impacts on developmental gene regulatory networks. Doliolids are the only polymorphic chordate, deploying a single genome to program distinct morphs specialized for locomotion, feeding, asexual, or sexual reproduction. In this review, we provide a detailed summary of doliolid anatomy, development, taxonomy, ecology, life history, and the cellular basis for doliolid polymorphism. In order to frame the potential evolutionary and developmental insights that could be gained by studying doliolids, we provide a broader overview of polymorphism. We then discuss how comparative studies of polymorphic cnidarians have begun to illuminate the genetic basis of this unusual and complex life history strategy. We then provide a summary of life history divergence in the chordates, particularly among doliolids and their polymorphic cousins, the salps and pyrosomes.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":"1255-1268"},"PeriodicalIF":2.2,"publicationDate":"2024-11-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141592191","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Single-cell Transcriptomic Studies Unveil Potential Nodes of the Notochord Gene Regulatory Network.","authors":"Lenny J Negrón-Piñeiro, Anna Di Gregorio","doi":"10.1093/icb/icae084","DOIUrl":"10.1093/icb/icae084","url":null,"abstract":"<p><p>Transcription factors (TFs) are DNA-binding proteins able to modulate the timing, location, and levels of gene expression by binding to regulatory DNA regions. Therefore, the repertoire of TFs present in the genome of a multicellular organism and the expression of variable constellations of TFs in different cellular cohorts determine the distinctive characteristics of developing tissues and organs. The information on tissue-specific assortments of TFs, their cross-regulatory interactions, and the genes/regulatory regions targeted by each TF is summarized in gene regulatory networks (GRNs), which provide genetic blueprints for the specification, development, and differentiation of multicellular structures. In this study, we review recent transcriptomic studies focused on the complement of TFs expressed in the notochord, a distinctive feature of all chordates. We analyzed notochord-specific datasets available from organisms representative of the three chordate subphyla, and highlighted lineage-specific variations in the suite of TFs expressed in their notochord. We framed the resulting findings within a provisional evolutionary scenario, which allows the formulation of hypotheses on the genetic/genomic changes that sculpted the structure and function of the notochord on an evolutionary scale.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":"1194-1213"},"PeriodicalIF":2.2,"publicationDate":"2024-11-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11579531/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141447656","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Structural and Evolutionary Relationships of Melanin Cascade Proteins in Cnidarian Innate Immunity.","authors":"Emily W Van Buren, Ivan E Ponce, Kelsey M Beavers, Alexia Stokes, Mariah N Cornelio, Madison Emery, Laura D Mydlarz","doi":"10.1093/icb/icae115","DOIUrl":"10.1093/icb/icae115","url":null,"abstract":"<p><p>Melanin is an essential product that plays an important role in innate immunity in a variety of organisms across the animal kingdom. Melanin synthesis is performed by many organisms using the tyrosine metabolism pathway, a general pathway that utilizes a type-three copper oxidase protein, called PO-candidates (phenoloxidase candidates). While melanin synthesis is well-characterized in organisms like arthropods and humans, it is not as well-understood in non-model organisms such as cnidarians. With the rising anthropomorphic climate change influence on marine ecosystems, cnidarians, specifically corals, are under an increased threat of bleaching and disease. Understanding innate immune pathways, such as melanin synthesis, is vital for gaining insights into how corals may be able to fight these threats. In this study, we use comparative bioinformatic approaches to provide a comprehensive analysis of genes involved in tyrosine-mediated melanin synthesis in cnidarians. Eighteen PO-candidates representing five phyla were studied to identify their evolutionary relationship. Cnidarian species were most similar to chordates due to domain presents in the amino acid sequences. From there, functionally conserved domains in coral proteins were identified in a coral disease dataset. Five stony corals exposed to stony coral tissue loss disease were leveraged to identify 18 putative tyrosine metabolism genes, genes with functionally conserved domains to their Homo sapiens counterpart. To put this pathway in the context of coral health, putative genes were correlated to melanin concentration from tissues of stony coral species in the disease exposure dataset. In this study, tyrosinase was identified in stony corals as correlated to melanin concentrations and likely plays a key role in immunity as a resistance trait. In addition, stony coral genes were assigned to all modules within the tyrosine metabolism pathway, indicating an evolutionary conservation of this pathway across phyla. Overall, this study provides a comprehensive analysis of the genes involved in tyrosine-mediated melanin synthesis in cnidarians.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":"1320-1337"},"PeriodicalIF":2.2,"publicationDate":"2024-11-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11579526/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141725127","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Deuterostome Ancestors and Chordate Origins.","authors":"Billie J Swalla","doi":"10.1093/icb/icae134","DOIUrl":"10.1093/icb/icae134","url":null,"abstract":"<p><p>The Deuterostomia are a monophyletic group, consisting of the Ambulacraria, with two phyla, Hemichordata and Echinodermata, and the phylum Chordata, containing the subphyla Cephalochordata (lancelets or Amphioxus), Tunicata (Urochordata), and Vertebrata. Hemichordates and echinoderms are sister groups and are critical for understanding the deuterostome ancestor and the origin and evolution of the chordates within the deuterostomes. Enteropneusta, worm-like hemichordates, share many chordate features as adults, including a post-anal tail, gill slits, and a central nervous system (CNS) that deploys similar developmental genetic regulatory networks (GRNs). Genomic comparisons show that cephalochordates share synteny and a vermiform body plan similar to vertebrates, but phylogenomic analyses place tunicates as the sister group of vertebrates. Tunicates have a U-shaped gut and a very different adult body plan than the rest of the chordates, and all tunicates have small genomes and many gene losses, although the GRNs underlying specific tissues, such as notochord and muscle, are conserved. Echinoderms and vertebrates have extensive fossil records, with fewer specimens found for tunicates and enteropneusts, or worm-like hemichordates. The data is mounting that the deuterostome ancestor was a complex benthic worm, with gill slits, a cartilaginous skeleton, and a CNS. Two extant groups, echinoderms and tunicates, have evolved highly derived body plans, remarkably different than the deuterostome ancestor. We review the current genomic and GRN data on the different groups of deuterostomes' characters to re-evaluate different hypotheses of chordate origins. Notochord loss in echinoderms and hemichordates is as parsimonious as notochord gain in the chordates but has implications for the deuterostome ancestor. The chordate ancestor lost an ancestral nerve net, retained the CNS, and evolved neural crest cells.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":"1175-1181"},"PeriodicalIF":2.2,"publicationDate":"2024-11-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141894871","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Big fish can't jump? Allometry of terrestrial jumping in cyprinodontiform fishes.","authors":"Michael Robert Minicozzi, Alexander Finden, Raquel Dias, Quentin Phillips, Carly Abelson, Alice Coulter Gibb","doi":"10.1093/icb/icae155","DOIUrl":"10.1093/icb/icae155","url":null,"abstract":"<p><p>Teleost fishes that emerge onto land must produce effective terrestrial movements to return to the water. Using the Cyprinodontiformes as a model system, we examined a terrestrial behavior termed the tail-flip jump across a size range of individuals representing three species of aquatic killifishes (Gambusia affinis, Poecilia mexicana, and Jordanella floridae) and two species of amphibious killifishes (Kryptolebias marmoratus and Fundulus heteroclitus) to identify potential effects of size (mass) on jumping performance. The ballistic trajectory equation was used to partition the contributions of velocity (determined by acceleration and contact time) and takeoff angle to jump distance. Despite differences in size (over an order of magnitude) all fishes took off from the ground at ∼45°. However, in terms of total displacement, aquatic and amphibious killifish species scaled differently in their ability to perform the tail-flip jump. Aquatic killifishes decrease in total jump distance as mass increases; however, amphibious killifishes increase in total jump distance as mass increases. Aquatic killifishes cannot produce adequate accelerations at larger sizes, but amphibious killifishes produce similar accelerations despite over an order of magnitude size difference. Because of this, amphibious killifish species are able to maintain fast takeoff velocities at large body sizes. Distinct scaling patterns may be generated by differences in body shape. Aquatic killifishes have a fusiform body shape, with most of their body mass in the anterior of the body, while amphibious killifishes have a more uniform body shape that reduces their overall mass present in the anterior body. We hypothesize that reduced mass in the anterior body facilitates raising the head over the tail to prepare for takeoff. In contrast with amphibious species, the negative scaling relationship seen in body size vs. displacement in aquatic killifishes implies an upper size limit to producing the tail-flip jump for fish species that infrequently encounter the terrestrial environment.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":""},"PeriodicalIF":2.2,"publicationDate":"2024-11-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633155","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Marine Debris Harbor Unique, yet Functionally Similar Cryptofauna Communities.","authors":"Tokea G Payton, Anna M Metzger, Michael J Childress","doi":"10.1093/icb/icae113","DOIUrl":"10.1093/icb/icae113","url":null,"abstract":"<p><p>Human-made debris is entering the ocean at alarming rates. These artificial structures are becoming habitats for small marine taxa known as cryptofauna. Cryptofauna are among the most essential reef taxa; however, little is known about these organisms, let alone their fate considering degrading coral reefs and increasing anthropogenic disturbance. The current study explores differences in naturally occurring cryptofauna biodiversity compared to those inhabiting benthic marine debris. To explore this difference, we measured invertebrate diversity from autonomous reef monitoring structures (ARMS) located on patch reefs along the middle Florida Keys reef tract. ARMS were used as a proxy for natural structure to compare to marine debris removed from five reef locations. Plastic debris was the most abundant of all the debris material collected. Wood and concrete were identified as covariates since they are sourced from wooden lobster traps. Taxa diversity varied significantly between ARMS and debris, indicating that each structural unit contained significantly different and diverse communities. The most influential taxa identified included commensal shrimps, hermit crabs, brittle stars, segmented worms, and several families of crabs. Additionally, while functional richness increased with taxa richness for ARMS communities, debris communities showed decreasing functional richness and high functional similarity, suggesting a specialization of debris-specific taxa. Overall, these data assist in better understanding of the marine community ecology surrounding anthropogenic marine debris for future debris removal and management practices for comprehensive reef health.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":"1102-1114"},"PeriodicalIF":2.2,"publicationDate":"2024-10-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141604571","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Hurricane Irma Linked to Coral Skeletal Density Shifts on the Florida Keys Reef Tract.","authors":"Griffith Aliyah, Sanchez Gomez Jose, Castillo Karl","doi":"10.1093/icb/icae128","DOIUrl":"10.1093/icb/icae128","url":null,"abstract":"<p><p>Coral reefs are at risk due to various global and local anthropogenic stressors that impact the health of reef ecosystems worldwide. The most recent climate models predict that climate change will increase the frequency and intensity of tropical storms. This increased storm occurrence and strength will likely compromise coral reef structures and habitats for reef-dwelling organisms, including across the Florida Keys Reef Tract (FKRT), the most extensive tropical reef system along the US coast. While several recent studies reveal the chronic impacts of tropical storms on corals, relatively little is known about the effects of major storm events on coral growth and how these effects vary over spatiotemporal scales. Here, I characterize the skeletal growth of two common Caribbean reef-building coral species, Siderastrea siderea and Pseudodiploria strigosa, before and after Hurricane Irma to investigate the storm's impact on coral skeletal growth on inner and outer reefs of the FKRT. Coral cores were extracted from both species at four inner and four outer reef sites in May 2015, before Hurricane Irma struck the Florida Keys in September 2017. Subsequently, 33 micro-cores were collected in May 2019, two years after the storm traversed our previously cored coral colonies. A three-way ANOVA model with storm, species, and reef location as the three factors was used to assess the impact of the storm on each of three growth parameters: skeletal density, linear extension, and calcification rates. Results reveal no difference in the coral annual skeletal growth parameters pre- and post-Hurricane Irma, although previously quantified differences in these growth parameters across species and location were observed. However, analysis of the \"yearly\" change in annual skeletal growth parameters showed significant differences in skeletal density across groups before and after Hurricane Irma, but not for linear extension and calcification rates. Our findings improve an understanding of the impacts of tropical storms on coral skeletal growth and offer new insights into how we can employ corals' innate growth capacities to help conserve coral reefs under climate change.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":"1064-1077"},"PeriodicalIF":2.2,"publicationDate":"2024-10-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11518571/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141894909","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The Joy Factor: Redefining Leadership Excellence at Black in Marine Science through Joy-Centered Leadership Practices.","authors":"Lynnette Adams, Tiara Moore","doi":"10.1093/icb/icae148","DOIUrl":"10.1093/icb/icae148","url":null,"abstract":"<p><p>At Black in Marine Science (BIMS), the integration of joy-centered leadership principles has emerged as a transformative blueprint for empowering leaders and fostering inclusive environments. This article explores the integration of the Formula for Joy (F4J) model within BIMS, providing a comprehensive overview of its principles and practices. It presents the model as an adaptable leadership approach suitable for a diverse range of leaders and organizational contexts. The F4J model, uniquely designed for the challenges and opportunities within BIMS, specializes in leaders' personal joy and wellness. It encourages leaders to embark on a journey of self-discovery, embracing their true identities and finding fulfillment within their roles. By fostering an authentic exploration of self and nurturing continuous growth, leaders can cultivate meaningful connections within their teams, promoting collaboration and unity. Moreover, the F4J model highlights the significance of psychological safety and balanced well-being in creating environments where individuals feel valued and culturally supported. By championing an ethos of iterative joyfulness, leaders engage in ongoing self-reflection and improvement, enhancing their well-being while fostering resilience in navigating organizational challenges. This article underscores the practical benefits of joy-centered leadership within BIMS, offering a roadmap for leaders to infuse joy into their practices and drive positive change. By embracing the principles of F4J, leaders within and around BIMS can foster environments of empowerment where diversity is celebrated, and individuals thrive.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":"1162-1170"},"PeriodicalIF":2.2,"publicationDate":"2024-10-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142114939","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Hypoxia Tolerance of Two Killifish Species.","authors":"Peyton A Thomas, Stephen T Kinsey","doi":"10.1093/icb/icae144","DOIUrl":"10.1093/icb/icae144","url":null,"abstract":"<p><p>Hypoxia tolerance in aquatic ectotherms involves a suite of behavioral and physiological responses at the organismal, tissue, and cellular levels. The current study evaluated two closely related killifish species (Fundulus heteroclitus, Fundulus majalis) to evaluate responses to acute moderate and acute severe hypoxia. Routine metabolic rate and loss of equilibrium were assessed, followed by analysis in skeletal muscle of markers of oxidative damage to proteins (2,4-DNPH), lipids (4-HNE), and DNA (8-OHdG), hypoxia signaling (HIF1α, HIF2α), cellular energy state (p-AMPK: AMPK), and protein degradation (Ubiquitin, LC3B, Calpain 2, Hsp70). Both species had a similar reduction in metabolic rate at low PO2. However, F. heteroclitus was the more hypoxia-tolerant species based on a lower PO2 at which there was loss of equilibrium, perhaps due in part to a lower oxygen demand at all oxygen tensions. Despite the differences in hypoxia tolerance between the species, skeletal muscle molecular markers were largely insensitive to hypoxia, and there were few differences in responses between the species. Thus, the metabolic depression observed at the whole animal level appears to limit perturbations in skeletal muscle in both species during the hypoxia treatments.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":"1115-1130"},"PeriodicalIF":2.2,"publicationDate":"2024-10-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11518574/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142141842","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Into the spongy-verse: structural differences between leaf and flower mesophyll.","authors":"Jeroen D M Schreel, Guillaume Théroux-Rancourt, Pamela K Diggle, Craig Brodersen, Adam B Roddy","doi":"10.1093/icb/icae154","DOIUrl":"https://doi.org/10.1093/icb/icae154","url":null,"abstract":"<p><p>As the site of almost all terrestrial carbon fixation, the mesophyll tissue is critical to leaf function. However, mesophyll tissue is not restricted only to leaves but also occurs in the laminar, heterotrophic organs of the floral perianth, providing a powerful test of how metabolic differences are linked to differences in tissue structure. Here, we compared mesophyll tissues of leaves and flower perianths of six species using high-resolution X-ray computed microtomography (microCT) imaging. Consistent with previous studies, stomata were nearly absent from flowers, and flowers had a significantly lower vein density compared to leaves. However, mesophyll porosity was significantly higher in flowers than in leaves, and higher mesophyll porosity was associated with more aspherical mesophyll cells. Despite these differences in cell and tissue structure between leaf and flower mesophyll, modeled intercellular airspace conductance did not differ significantly between organs, regardless of differences in stomatal density between organs. These results suggest that in addition to differences between leaves and flowers in vein and stomatal densities, the mesophyll cells and tissues inside these organs also exhibit marked differences that may allow for flowers to be relatively cheaper in terms of biomass investment per unit of flower surface area.</p>","PeriodicalId":54971,"journal":{"name":"Integrative and Comparative Biology","volume":" ","pages":""},"PeriodicalIF":2.2,"publicationDate":"2024-10-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142523732","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}