Journal of Phycology最新文献

{"title":"KEIO knockout collection reveals metabolomic crosstalk in Chlorella spp.-Escherichia coli co-cultures.","authors":"Cheah Yi Tong, Hiroya Tomita, Kentaro Miyazaki, Chan Juinn Chieh Derek, Kohsuke Honda","doi":"10.1111/jpy.70001","DOIUrl":"https://doi.org/10.1111/jpy.70001","url":null,"abstract":"<p><p>The interdependence between microalgae and bacteria has sparked scientific interest over years, primarily driven by the practical applications of microalgal-bacteria consortia in wastewater treatment and algal biofuel production. Although adequate studies have focused on the broad interactions and general behavior between the two entities, there remains a scarcity of study on the metabolic role of symbiotic bacteria in promoting microalgal growth. Here, we use the KEIO Knockout Collection, an Escherichia coli gene knockout mutant library, to systematically screen for genes involved in the interdependence of Chlorella sorokiniana and E. coli. By co-cultivating C. sorokiniana and E. coli knockout mutants in 96-well microplates (200 μL medium per well) under white light at 25°C, 31 potential algal growth-promoting and 56 growth-inhibiting genes out of 3985 genes were identified that enhanced (≥1.25-fold) and diminished (≤0.8-fold) the production of algal chlorophyll-a content, respectively. Kyoto Encyclopedia of Genes and Genomes (KEGG) mapping of these growth-regulating genes suggested a metabolic symbiosis involving bacteria-derived cobalamin (cobU, cobC), biotin (bioB, bioF, bioC, bioD, fabF, fabH), riboflavin (fbp, guaB, gnd, guaA, zwf, purA), and 2,3-butanediol (fumB, adhE, mdh, frdB, pta, sdhC). The effects of these metabolites were further validated by supplementing the agents into the axenic algal cultures; Dose-dependent trends were observed for each metabolite, with a maximum four-fold increase in algal biomass productivity over the control. The specific growth rate of algae was increased by ≥1.27-fold and doubling time was shortened by ≥22.5%. The present results, obtained through genome-wide analyses of interdependence between microalgae and bacteria, reveals multiple interactions between organisms via metabolites.</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143615825","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":"Characterization of the Pyropia katadae plastid genome and comparative analysis within Bangiales species.","authors":"Xianghai Tang, Xinzi Yu, Xinyu Zhu, Ka Bian, Chengzhen Meng, Yunxiang Mao","doi":"10.1111/jpy.70007","DOIUrl":"https://doi.org/10.1111/jpy.70007","url":null,"abstract":"<p><p>Bangiales species live in intertidal regions and suffer from stresses from a variable environment, making them suitable research objects for studying how plants adapt to nature. In this study, the plastid genome of Pyropia katadae was sequenced and compared with those of 11 previously reported Bangiales species. The Py. katadae plastid genome was 193,531 bp long and contained a single-copy region (LSC) of 149,821 bp, a small single-copy region (SSC) of 34,732 bp, and two direct repeats (DRs) 4489 bp long in between. Furthermore, we compared the plastid genomes of 12 Bangiales species. Among the 12 Bangiales plastid genomes, Bangia fuscopurpurea harbored the largest plastid genome size (196,913 bp), and Py. perforata harbored the smallest (189,789 bp). Phylogenetic analyses of shared genes indicated that Py. katadae clustered with Py. yezoensis into a single clade with a high bootstrap value. An overall high degree of similarity in gene content and arrangement among the Bangiales plastid genomes was observed. The size of the plastid genomes and that of the repeats of Pyropia were positively correlated, demonstrating that the repeats were essential for changes in the plastid genome size over a short evolutionary time. The presence of DR or approximate DR regions in most Bangiales plastid genomes indicates the existence of DR regions in their last common ancestor. The different shortened lengths of identical DR regions showed that each species experienced species-specific evolutionary events, which might cause variations in the sequences and the loss of genes. The two steps of fragment reversal could generate the DRs of Bangiales species from an ancestor in common with Florideophyceae. We identified positive selection sites in eight genes that appeared to be essential for Bangiales species to adapt to diverse environments. Our results provide essential genetic data for an in-depth understanding of the evolution and phylogeny of Bangiales species.</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143585931","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":"Cryptic diversity within the Gonyaulax spinifera species complex, its relation to the cyst-defined species Spiniferites bentorii, S. mirabilis and S. membranaceus, with the description of Gonyaulax carbonell-mooreae sp. nov. (Gonyaulacales, Dinophyceae).","authors":"Shuning Huang, Kenneth Neil Mertens, Lam Nguyen-Ngoc, Hai Doan-Nhu, Bernd Krock, Zhun Li, Doc Quang Luong, Gwenael Bilien, Vera Pospelova, Hyeon Ho Shin, Sascha Plewe, Haifeng Gu","doi":"10.1111/jpy.70005","DOIUrl":"https://doi.org/10.1111/jpy.70005","url":null,"abstract":"<p><p>The fossil dinoflagellates Spiniferites bentorii, S. mirabilis, and S. membranaceus are known to inhabit recent sediments and are often used to reconstruct past sea-surface conditions. However, information on their corresponding motile cells has been rare. We isolated single cysts resembling these fossil species from China and France to yield Gonyaulax spinifera-like cells. Gonyaulax strains were also established from Viet Nam and South Korea by isolating single cells. Both cysts and cells were examined by light and scanning electron microscopy, and their LSU rRNA genes were sequenced. A new Gonyaulax species, G. carbonell-mooreae, was obtained from S. bentorii-like cysts and considered the equivalent of Spiniferites bullatus, dating back to the Campanian. Gonyaulax kunsanensis was related to S. mirabilis-like cysts. A typical S. membranaceus cyst from France yielded cells resembling G. lewisiae but shared only 75% similarity in LSU rRNA gene sequence with those from South Korea. Molecular phylogeny revealed that the pronounced apical boss is systematically significant, whereas the presence of intergonal processes is insignificant. Two ASVs of 18S rRNA V4 region were respectively identified as G. kunsanensis and G. lewisiae from the Tara Oceans metabarcoding data. Gonyaulax kunsanensis has a wide distribution in the Pacific, Indian, and Atlantic Oceans, but G. lewisiae has a restricted distribution. One strain of G. kunsanensis was examined for yessotoxin content using liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS), but no detectable amounts of toxins were observed. Our results uncover the hidden diversity within the G. spinifera species complex and stress the significance of cyst morphology in the taxonomy of Gonyaulax.</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143597245","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":"A comparison of calcification mechanisms in haploid and diploid cells of the coccolithophore Calcidiscus leptoporus (Murray & Blackman 1898).","authors":"Erin M Meyer, Alison R Taylor","doi":"10.1111/jpy.70006","DOIUrl":"https://doi.org/10.1111/jpy.70006","url":null,"abstract":"<p><p>Coccolithophores are prominent marine pelagic calcifiers due to their production of calcite coccoliths. Diploid coccolithophores produce heterococcoliths intracellularly, with an organic cellulose baseplate scale acting as a nucleating substrate. However, coccolith production in the haploid life phase has not been extensively studied. Most haploid coccolithophores produce distinct holococcoliths that were previously thought to be produced in an extracellular space. However, we recently observed intracellular holococcolith production in haploid Coccolithus braarudii. We therefore compared the calcification mechanisms of the 2 N and N phases of Calcidiscus leptoporus, an understudied yet ecologically important species, to better understand ultrastructure features related to calcification and explore aspects of the calcification pathway in each life-history phase. We show that both life phases of C. leptoporus produce coccoliths intracellularly and that holococcoliths are likely nucleating on body scales in a dilated vacuole space rather than within a tightly associated coccolith vesicle (CV) as in diploid heterococcolith production. Both life phases were sensitive to the SERCA Ca²⁺ATPase inhibitor thapsigargin, suggesting conservation in the transcellular Ca²⁺ transport pathways utilized for intracellular calcification, namely through calcium accumulation in the endoplasmic reticulum. However, the Si analogue germanium led to severe disruption of the CV and coccolith morphogenesis only in the diploid life phase. This work provides strong evidence to support a model of intracellular holococcolith production and clearly demonstrates that calcification in both life phases shares a common cellular pathway. Nevertheless, differences in the spatial arrangement of the CV membrane exert significant control over crystal growth that has profound consequences for coccolith morphology.</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143585916","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":"Hyposaline conditions impact the early life-stages of commercially important high-latitude kelp species.","authors":"Veronica Farrugia Drakard, Jordan A Hollarsmith, Michael S Stekoll","doi":"10.1111/jpy.70003","DOIUrl":"https://doi.org/10.1111/jpy.70003","url":null,"abstract":"<p><p>This study examines how hyposaline stress impacts the early life-stages of commercial kelp species from Alaska. Kelp are important species both ecologically and commercially and are likely to experience significant impacts due to ongoing climate change. Climate-driven glacial melt and changing rainfall patterns globally will release large amounts of freshwater into coastal systems in the coming decades. Both bull kelp (Nereocystis luetkeana) and ribbon kelp (Alaria marginata) are high-latitude species of commercial and ecological importance. These species inhabit very different environments: While bull kelp is a subtidal, canopy-forming species, ribbon kelp is an intertidal subcanopy species. In this study, fertile specimens of both were collected from various locations in Alaska and induced to release spores. These were cultivated for 30 days in four salinity treatments: 32, 25, 20, and 13. Both species grew and produced gametophytes in salinities down to a salinity of 20, although A. marginata seems to be better adapted to hyposaline conditions. Below a salinity of 20, we observed several impacts on progression between life stages. The response of gametophyte growth and the production of eggs and sporophytes to different salinities varied both by species and by population. Gametophytes of N. luetkeana grew fastest at a salinity of 32, while those of A. marginata grew fastest between 20 and 25 (Juneau) or 25 and 32 (Kodiak). In terms of egg production, A. marginata displayed significant population-level variation. Juneau individuals produced the same number of eggs regardless of salinity. Kodiak individuals produced fewer eggs in hyposaline conditions. The production of sporophytes from eggs for both species from all locations was unaffected by salinities above 20; however, no sporophytes at all were produced at 13. All of this has implications for commercial production in the hatchery phase, as hyposaline stress may induce N. luetkeana to produce sporophytes faster than in full oceanic salinity. In terms of wild populations, the observed population-level and species-level differences in adaptation to hyposaline conditions suggest that decreased salinities in coastal areas are likely to impact the distribution of these two species over the coming decades.</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-02-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143476675","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":"Seasonality and interannual stability in the population genetic structure of Batrachospermum gelatinosum (Rhodophyta).","authors":"Sarah Shainker-Connelly, Solenn Stoeckel, Morgan L Vis, Roseanna M Crowell, Stacy A Krueger-Hadfield","doi":"10.1111/jpy.13539","DOIUrl":"https://doi.org/10.1111/jpy.13539","url":null,"abstract":"<p><p>Temporal population genetic studies have investigated evolutionary processes, but few have characterized reproductive system variation. Yet, temporal sampling may improve our understanding of reproductive system evolution through the assessment of the relative rates of selfing, outcrossing, and clonality. In this study, we focused on the monoicous, haploid-diploid freshwater red alga Batrachospermum gelatinosum. This species has a perennial, microscopic diploid phase (chantransia) that produces an ephemeral, macroscopic haploid phase (gametophyte). Recent work focusing on single-time point genotyping suggested high rates of intragametophytic selfing, although there was variation among sites. We expand on this work by genotyping 191 gametophytes sampled from four sites that had reproductive system variation based on single-snapshot genotyping. For this study, we sampled at multiple time points within and among years. Results from intra-annual data suggested shifts in gametophytic genotypes throughout the season. We hypothesize that this pattern is likely due to the seasonality of the life cycle and the timing of meiosis among the chantransia. Interannual patterns were characterized by consistent genotypic and genetic composition, indicating stability in the prevailing reproductive system through time. Yet, our study identified limits by which available theoretical predictions and analytical tools can resolve reproductive system variation using haploid data. There is a need to develop new analytical tools to understand the evolution of sex by expanding our ability to characterize the spatiotemporal variation in reproductive systems across diverse life cycles.</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-02-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143425644","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":"Algal perspectives: The algal phyla.","authors":"Charles F Delwiche","doi":"10.1111/jpy.13546","DOIUrl":"https://doi.org/10.1111/jpy.13546","url":null,"abstract":"","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-02-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143414218","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":"Three reference genomes for freshwater diatom ecology and evolution.","authors":"Wade R Roberts, Andrew J Alverson","doi":"10.1111/jpy.13545","DOIUrl":"https://doi.org/10.1111/jpy.13545","url":null,"abstract":"<p><p>Diatoms are an important component of marine and freshwater ecosystems. Although the majority of described diatom species live in freshwater systems, genome sequencing efforts have focused primarily on marine species. Genomic resources for freshwater species have the potential to improve our understanding of diatom ecology and evolution, particularly in the context of major environmental shifts. We used long- and short-read sequencing platforms to assemble reference genomes for three freshwater diatom species, all in the order Thalalassiosirales, which are abundant in the plankton of oceans, lakes, reservoirs, and rivers worldwide. We targeted three species that cover the breadth of phylogenetic diversity in the cyclostephanoid clade of Thalassiosirales: Cyclostephanos tholiformis (JALLPB020000000), Discostella pseudostelligera (JALLBG020000000), and Praestephanos triporus (JALLAZ020000000). The reference genome for D. pseudostelligera was considerably smaller (39 Mb) than those of both P. triporus (73 Mb) and C. tholiformis (177 Mb). Long-read sequencing allowed for the assembly of scaffold-level genomes, including regions rich in repetitive DNA. Compared to short-read assemblies, long-read assemblies increased the contig N50 length as much as 37-fold and reduced the number of contigs by more than 88%. Transcriptome-guided annotation of the protein-coding genes identified between 10,000 and 12,000 genes. This work provides further demonstration of the value of long-read sequencing and provides novel genomic resources for understanding the ecology and evolution of freshwater diatoms.</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143391214","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":"Linking phenotypic variation to patterns of genetic isolation along a speciation continuum.","authors":"Sabrina Heiser, Charles D Amsler, Andrew J Shilling, Hazel M Higginbotham, Margaret O Amsler, Solenn Stoeckel, James B McClintock, Bill J Baker, Stacy A Krueger-Hadfield","doi":"10.1111/jpy.13529","DOIUrl":"https://doi.org/10.1111/jpy.13529","url":null,"abstract":"<p><p>Investigating taxa at varying stages of divergence can shed light on the evolutionary forces that lead to reproductive isolation and eventual speciation. The forces promoting isolation vary in space and time, which makes it difficult to reconstruct the trajectory that resulted in the divergence observed among species today. The red macroalgal genus Plocamium is known worldwide for its cryptic genetic and chemical diversity. Previous work on the genus Plocamium in Antarctica observed two haplotypes along the western Antarctic Peninsula that have been treated as the same species. Using 10 microsatellite loci, we observed that these two haplotypes correspond to two highly divergent, co-occurring genetic entities in Antarctic Plocamium, which are located within close vicinity of each other at the same sites. The morphology of the reproductive structures, a feature commonly used to identify cryptic species in Plocamium, as well as the timing of reproduction, differed significantly between the two genetic entities. Altogether, this suggests that two Antarctic Plocamium species exist on the western Antarctic Peninsula. We observed evidence for high levels of selfing in both genetic entities, which likely exacerbated the lack of gene flow between them. In addition, we identified concomitant chemodiversity that generates compelling evidence of early evolutionary divergence within one of these entities. This chemodiversity has ecological consequences for its main grazer, which alludes to one putative evolutionary driver of divergence. Antarctic Plocamium spp. provide a promising model system for investigating the eco-evolutionary forces that initiate and maintain species boundaries.</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143365173","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":"Exploring cyanobacteria from diverse habitats of the Konkan region of India, unveiling novel species of the genera Desikacharya, Pseudoaliinostoc, and Chlorogloeopsis using a polyphasic approach.","authors":"Harsh Pant, Naresh Kumar, Sagarika Pal, Prashant Singh","doi":"10.1111/jpy.13542","DOIUrl":"https://doi.org/10.1111/jpy.13542","url":null,"abstract":"<p><p>The Indian subcontinent has emerged as a natural habitat to several cyanobacterial taxa which have been explored and described in the past few years using a polyphasic approach. Various new genera and species of Nostoc morphotypes, heteropolar unbranched as well as branched heterocytous cyanobacteria, have been described from various parts of India such as the central mainland, temperate hill stations of extreme northern India, and the biodiversity hotspots of northeast India. Konkan, a small strip of land bounded by Arabian sea on the west and Sahyadri mountains on the east, has various habitats such as coastal beds, old monuments, freshwater lakes, and rivers; however, this region has been less charted in modern cyanobacterial systematics, relative to others. The region has a tropical climate with heavy monsoon showers owing to its location on the windward side of the northern Western Ghats, a global biodiversity hotspot. Through this study, several districts of the Konkan region of Maharashtra and Goa were explored for cyanobacterial diversity and evaluated through a polyphasic approach with three novel species of the genus Desikacharya, two novel species of the genus Pseudoaliinostoc and one new species of the monotypic genus Chlorogloeopsis being described in accordance with the International Code of Nomenclature for algae, fungi and plants (ICN).</p>","PeriodicalId":16831,"journal":{"name":"Journal of Phycology","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-01-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143033371","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}