IF 2.5 3区生物学

Protist Pub Date : 2024-04-18 DOI: 10.1016/j.protis.2024.126035

Asma Farjallah, Matthieu Fillion, Céline Guéguen

引用次数: 0

Redescription and molecular phylogeny of the freshwater metopid, Castula strelkowi (Jankowski, 1964) from the Czech Republic and synonymization of Pileometopus with Castula 捷克共和国淡水栉水母 Castula strelkowi（Jankowski，1964 年）的重新描述和分子系统发育以及 Pileometopus 与 Castula 的同义化

IF 2.5 3区生物学

Protist Pub Date : 2024-03-29 DOI: 10.1016/j.protis.2024.126034

William Bourland, Ondřej Pomahač, Ivan Čepička

{"title":"Redescription and molecular phylogeny of the freshwater metopid, Castula strelkowi (Jankowski, 1964) from the Czech Republic and synonymization of Pileometopus with Castula","authors":"William Bourland, Ondřej Pomahač, Ivan Čepička","doi":"10.1016/j.protis.2024.126034","DOIUrl":"https://doi.org/10.1016/j.protis.2024.126034","url":null,"abstract":"<div>The relationships of the mainly free living, obligately anaerobic ciliated protists belonging to order Metopida continue to be clarified and now comprise three families: Metopidae, Tropidoatractidae, and Apometopidae. The most species-rich genus of the Metopidae, Metopus has undergone considerable subdivision into new genera in recent years as more taxa are characterized by modern morphologic and molecular methods. The genus, Castula, was established to accommodate setae-bearing species previously assigned to Metopus: C. setosa and C. fusca, and one new species, C. flexibilis. Another new species, C. specialis, has been added since. Here we redescribe another species previously included in Metopus, using morphologic and molecular methods, and transfer it to Castula as C. strelkowi n. comb. (original combination Metopus strelkowi). We also reassess the monotypic genus, Pileometopus, which nests within the strongly supported Castula clade in 18S rRNA gene trees and conclude that it represents a morphologically divergent species of Castula.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 3","pages":"Article 126034"},"PeriodicalIF":2.5,"publicationDate":"2024-03-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140342576","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}

引用次数: 0

Circular extrachromosomal DNA in Euglena gracilis under normal and stress conditions 正常和应激条件下褐藻中的环状染色体外DNA

IF 2.5 3区生物学

Protist Pub Date : 2024-03-29 DOI: 10.1016/j.protis.2024.126033

Natalia Gumińska , Paweł Hałakuc , Bożena Zakryś , Rafał Milanowski

{"title":"Circular extrachromosomal DNA in Euglena gracilis under normal and stress conditions","authors":"Natalia Gumińska , Paweł Hałakuc , Bożena Zakryś , Rafał Milanowski","doi":"10.1016/j.protis.2024.126033","DOIUrl":"https://doi.org/10.1016/j.protis.2024.126033","url":null,"abstract":"<div>Extrachromosomal circular DNA (eccDNA) enhances genomic plasticity, augmenting its coding and regulatory potential. Advances in high-throughput sequencing have enabled the investigation of these structural variants. Although eccDNAs have been investigated in numerous taxa, they remained understudied in euglenids. Therefore, we examined eccDNAs predicted from Illumina sequencing data of Euglena gracilis Z SAG 1224–5/25, grown under optimal photoperiod and exposed to UV irradiation. We identified approximately 1000 unique eccDNA candidates, about 20% of which were shared across conditions. We also observed a significant enrichment of mitochondrially encoded eccDNA in the UV-irradiated sample. Furthermore, we found that the heterogeneity of eccDNA was reduced in UV-exposed samples compared to cells that were grown in optimal conditions. Hence, eccDNA appears to play a role in the response to oxidative stress in Euglena, as it does in other studied organisms. In addition to contributing to the understanding of Euglena genomes, our results contribute to the validation of bioinformatics pipelines on a large, non-model genome.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 3","pages":"Article 126033"},"PeriodicalIF":2.5,"publicationDate":"2024-03-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140342644","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}

引用次数: 0

Biodiversity of autotrophic euglenids based on the group specific DNA metabarcoding approach 基于特定组 DNA 代谢编码方法的自养藻类生物多样性

IF 2.5 3区生物学

Protist Pub Date : 2024-03-04 DOI: 10.1016/j.protis.2024.126024

Katarzyna Jankowska, Maja Łukomska-Kowalczyk, Rafał Milanowski, Alicja Fells, Bożena Zakryś

{"title":"Biodiversity of autotrophic euglenids based on the group specific DNA metabarcoding approach","authors":"Katarzyna Jankowska, Maja Łukomska-Kowalczyk, Rafał Milanowski, Alicja Fells, Bożena Zakryś","doi":"10.1016/j.protis.2024.126024","DOIUrl":"https://doi.org/10.1016/j.protis.2024.126024","url":null,"abstract":"<div>This study reports a comprehensive analysis of photoautotrophic euglenids’ distribution and biodiversity in 16 small water bodies of various types (including fish ponds, field ponds, rural ponds and park ponds) located in three regions of Poland: Masovia, Masuria and Pomerania during a period of three years. By employing a euglenid specific barcode marker and a curated database of V2 18S rDNA sequences it was possible to identify 97.7 % of euglenid reads at species level. A total of 152 species classified in 13 genera were identified. The number of euglenid species found in one pond varied from 40 to 102. The most common species were Euglena agilis and Euglenaria caudata, found in every analysed waterbody. The highest number of observed species belonged to Trachelomonas and Phacus. Certain species exhibited a tendency to coexist, suggesting the presence of distinct species assemblages. Among them, the most distinctive cluster was associated with water bodies located in the Masuria region, characterized also by the greatest species richness, including many very rare species: Euglenaformis chlorophoenicea, Lepocinclis autumnalis, L. marssonii, Trachelomonas eurystoma, T. manschurica, T. mucosa, T. zuberi, T. zuberi var. nepos.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 3","pages":"Article 126024"},"PeriodicalIF":2.5,"publicationDate":"2024-03-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140042540","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}

引用次数: 0

DNA barcodes reliably differentiate between nivicolous species of Diderma (Myxomycetes, Amoebozoa) and reveal regional differences within Eurasia DNA条形码可靠地区分了Diderma（粘菌纲，变形虫目）的裸子植物，并揭示了欧亚大陆的地区差异

IF 2.5 3区生物学

Protist Pub Date : 2024-02-10 DOI: 10.1016/j.protis.2024.126023

Oleg N. Shchepin , Ángela López Villalba , Maho Inoue , Ilya S. Prikhodko , Daria A. Erastova , Mikhail V. Okun , Jan Woyzichovski , Yuka Yajima , Vladimir I. Gmoshinskiy , Gabriel Moreno , Yuri K. Novozhilov , Martin Schnittler

{"title":"DNA barcodes reliably differentiate between nivicolous species of Diderma (Myxomycetes, Amoebozoa) and reveal regional differences within Eurasia","authors":"Oleg N. Shchepin , Ángela López Villalba , Maho Inoue , Ilya S. Prikhodko , Daria A. Erastova , Mikhail V. Okun , Jan Woyzichovski , Yuka Yajima , Vladimir I. Gmoshinskiy , Gabriel Moreno , Yuri K. Novozhilov , Martin Schnittler","doi":"10.1016/j.protis.2024.126023","DOIUrl":"10.1016/j.protis.2024.126023","url":null,"abstract":"<div>The nivicolous species of the genus Diderma are challenging to identify, and there are several competing views on their delimitation. We analyzed 102 accessions of nivicolous Diderma spp. that were sequenced for two or three unlinked genes to determine which of the current taxonomic treatments is better supported by molecular species delimitation methods. The results of a haplotype web analysis, Bayesian species delimitation under a multispecies coalescent model, and phylogenetic analyses on concatenated alignments support a splitting approach that distinguishes six taxa: Diderma alpinum, D. europaeum, D. kamchaticum, D. meyerae, D. microcarpum and D. niveum. The first two approaches also support the separation of Diderma alpinum into two species with allopatric distribution. An extended dataset of 800 specimens (mainly from Europe) that were barcoded with 18S rDNA revealed only barcode variants similar to those in the species characterized by the first data set, and showed an uneven distribution of these species in the Northern Hemisphere: Diderma microcarpum and D. alpinum were the only species found in all seven intensively sampled mountain regions. Partial 18S rDNA sequences serving as DNA barcodes provided clear signatures that allowed for unambiguous identification of the nivicolous Diderma spp., including two putative species in D. alpinum.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 2","pages":"Article 126023"},"PeriodicalIF":2.5,"publicationDate":"2024-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1434461024000154/pdfft?md5=7ee7d07adf4a2e18d8399420d4c56b23&pid=1-s2.0-S1434461024000154-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139875266","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}

引用次数: 0

Morpho-molecular and environmental evidence of the ocurrence of Karenia longicanalis (Dinophyceae: Kareniaceae) as a bloom former in the Eastern Pacific Ocean 形态-分子和环境方面的证据，证明长柄卡伦藻（Dinophyceae: Kareniaceae）曾在东太平洋出现过水华现象

IF 2.5 3区生物学

Protist Pub Date : 2024-02-07 DOI: 10.1016/j.protis.2024.126022

Alexis Escarcega-Bata , María Luisa Núñez Resendiz , María Eugenia Zamudio-Resendiz , Kurt M. Dreckmann , Estefany Cuevas Sánchez , Abel Sentíes

{"title":"Morpho-molecular and environmental evidence of the ocurrence of Karenia longicanalis (Dinophyceae: Kareniaceae) as a bloom former in the Eastern Pacific Ocean","authors":"Alexis Escarcega-Bata , María Luisa Núñez Resendiz , María Eugenia Zamudio-Resendiz , Kurt M. Dreckmann , Estefany Cuevas Sánchez , Abel Sentíes","doi":"10.1016/j.protis.2024.126022","DOIUrl":"https://doi.org/10.1016/j.protis.2024.126022","url":null,"abstract":"<div>Karenia longicanalis, an athecate dinoflagellate, was first described during a bloom in Victoria Harbour (Hong Kong, China). This study confirms the presence of K. longicanalis as a bloom former in the eastern Pacific Ocean. Specimens were collected in March 2019 at three sampling stations in Acapulco Bay, Mexico. Water temperature, salinity, dissolved oxygen, and pH were measured in situ at the time of sample collection. Cell morphology was examined by optical and scanning electron microscopy. A molecular analysis based on the amplification of the large subunit (LSU) rDNA region revealed that the LSU sequences formed a monophyletic group with other GenBank sequences belonging to K. longicanalis. The resulting phylogeny demonstrates that Karenia is closely related to Asterodinium, Gertia, and Shimiella. The morphology of the specimens was consistent with previous descriptions.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 2","pages":"Article 126022"},"PeriodicalIF":2.5,"publicationDate":"2024-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139718640","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}

引用次数: 0

DNA metabarcoding reveals the impact of Cu2+ on soil cercozoan diversity DNA 元标码揭示了 Cu2+ 对土壤纤毛虫多样性的影响

IF 2.5 3区生物学

Protist Pub Date : 2024-02-01 DOI: 10.1016/j.protis.2024.126016

Leah Lourenço , Sara Ellegaard Bager , Duncan Y.K. Ng , Sanea Sheikh , Nikolaj Lunding Kindtler , Ida Broman Nielsen , Tobias Guldberg Frøslev , Flemming Ekelund

{"title":"DNA metabarcoding reveals the impact of Cu2+ on soil cercozoan diversity","authors":"Leah Lourenço , Sara Ellegaard Bager , Duncan Y.K. Ng , Sanea Sheikh , Nikolaj Lunding Kindtler , Ida Broman Nielsen , Tobias Guldberg Frøslev , Flemming Ekelund","doi":"10.1016/j.protis.2024.126016","DOIUrl":"10.1016/j.protis.2024.126016","url":null,"abstract":"<div>Although copper (Cu2+) is a micronutrient, the metal may be toxic if present in high concentrations in soil ecosystems and subsequently affect various organisms, ranging from microorganisms to earthworms. We performed a microcosm study with an array of Cu2+ concentrations, with a specific focus on Cercozoa, an important protozoan group in most soil food webs. Research on Cercozoa is still scarce in terms of both diversity and ecology; hence, to explore this group in more depth, we used high-throughput sequencing to detect Cu2+ induced community changes. Increased levels of Cu2+ caused a shift in the cercozoan community, and we observed decreased cercozoan relative abundance across the majority of orders, families and genera. Due to their key role in soil food webs, especially as bacterial predators and providers of nutrients to plants, the reduction of cercozoan abundance and diversity may seriously affect soil functionality. Our results indicate that the increase of Cu2+ concentrations in the soil could potentially have this effect and the consequences need exploration.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 2","pages":"Article 126016"},"PeriodicalIF":2.5,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1434461024000087/pdfft?md5=4fe633e138ca7012ea67f8d32d371e4c&pid=1-s2.0-S1434461024000087-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139666493","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}

引用次数: 0

Phylogenetic affiliation of Pedinomonas noctilucae and green Noctiluca scintillans nutritional dynamics in the Gulf of Mannar, Southeastern Arabian Sea 阿拉伯海东南部马纳尔湾夜褐孔雀藻和闪烁绿夜光藻营养动态的系统发育隶属关系

IF 2.5 3区生物学

Protist Pub Date : 2024-01-30 DOI: 10.1016/j.protis.2024.126019

Vajravelu Manigandan, Chandrasekaran Muthukumar, Chinmay Shah, Natarajan Logesh, Sanitha K. Sivadas, Karri Ramu, M.V. Ramana Murthy

{"title":"Phylogenetic affiliation of Pedinomonas noctilucae and green Noctiluca scintillans nutritional dynamics in the Gulf of Mannar, Southeastern Arabian Sea","authors":"Vajravelu Manigandan, Chandrasekaran Muthukumar, Chinmay Shah, Natarajan Logesh, Sanitha K. Sivadas, Karri Ramu, M.V. Ramana Murthy","doi":"10.1016/j.protis.2024.126019","DOIUrl":"10.1016/j.protis.2024.126019","url":null,"abstract":"<div>The present investigation focused on studying the phylogenetic position of the green Noctiluca endosymbiont, Pedinomonas noctilucae, collected from the Gulf of Mannar, India. In this study, we re-examined the evolutionary position of this endosymbiotic algae using rbcL sequences. The phylogenetic analysis revealed that P. noctilucae is distantly related to the Pedinomonas species, and formed a monophyletic clade with Marsupiomandaceae. Based on the phylogenetic association of endosymbiont with Maruspiomonadales it was concluded that the endosymbiont belongs to an independent genus within the family Marsupiomonadaceae. At the site of the bloom, Noctiluca scintillans was found to exhibit a dense monospecific proliferation, with an average cell density of 27.l88 × 103 cells L−1. The investigation revealed that the green Noctiluca during its senescent phase primarily relied on autotrophic nutrition, which was confirmed by the presence of a high number of trophonts, vegetatively reproducing cells (1.45 × 103 cells L−1) and the absence of food vacuoles.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 2","pages":"Article 126019"},"PeriodicalIF":2.5,"publicationDate":"2024-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139646007","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}

引用次数: 0

Discovery of a new photosynthetic euglenoid in Poland: Euglena mazurica sp. nov. (Euglenales, Euglenaceae) 在波兰发现一种新的光合鳗：Euglena mazurica sp.

IF 2.5 3区生物学

Protist Pub Date : 2024-01-28 DOI: 10.1016/j.protis.2024.126015

Bożena Zakryś, Katarzyna Jankowska, Anna Majerowicz, Alicja Fells, Maja Łukomska-Kowalczyk

引用次数: 0

Ras superfamily GTPases and signal transduction in Euglena gracilis Ras 超家族 GTP 酶与草履虫的信号转导

IF 2.5 3区生物学

Protist Pub Date : 2024-01-28 DOI: 10.1016/j.protis.2024.126017

Mark C. Field

{"title":"Ras superfamily GTPases and signal transduction in Euglena gracilis","authors":"Mark C. Field","doi":"10.1016/j.protis.2024.126017","DOIUrl":"10.1016/j.protis.2024.126017","url":null,"abstract":"<div>Biological complexity is challenging to define, but can be considered through one or more features, including overall genome size, number of genes, morphological features, multicellularity, number of life cycle stages and the ability to adapt to different environments. Euglena gracilis meets several of these criteria, with a large genome of ∼38,000 protein coding genes and a considerable ability to survive under many different conditions, some of which can be described as challenging or harsh. Potential molecular exemplars of complexity tying these aspects together are signalling pathways, including GTPases, kinases and ubiquitylation, which increase the functionality of the gene-encoded proteome manyfold. Each of these examples can modulate both protein activity and gene expression. To address the connection between genome size and complexity I have undertaken a brief, and somewhat qualitative, survey of the small ras-like GTPase superfamily of E. gracilis. Unexpectedly, apart from Rab-GTPases which control intracellular transport and organelle identify, the size of the GTPase cohort is modest, and, for example, has not scaled with gene number when compared to the close relatives, trypanosomatids. I suggest that understanding the functions of this protein family will be vital to uncovering the complexity of E. gracilis biology.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 2","pages":"Article 126017"},"PeriodicalIF":2.5,"publicationDate":"2024-01-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1434461024000099/pdfft?md5=d23c2ce3f9eb244c429ad172b9528154&pid=1-s2.0-S1434461024000099-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139590215","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}

引用次数: 0

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