Journal of Eukaryotic Microbiology最新文献_第8页

Unexpected ubiquity of heart-shaped scale morphotype in Centroplasthelida (Haptista): Ancestral trait or multiple acquisitions? 心形鳞片形态在中心体动物(Haptista)中出乎意料的普遍存在:祖先特征还是多重获得?

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-07-14 DOI: 10.1111/jeu.12992

Elena A. Gerasimova, Yulia V. Mindolina, Denis V. Tikhonenkov, Vladimir Y. Kataev, Alexander S. Balkin, Kirill V. Mikhailov, Dmitry G. Zagumyonnyi, Andrey O. Plotnikov, Vasily V. Zlatogursky

{"title":"Unexpected ubiquity of heart-shaped scale morphotype in Centroplasthelida (Haptista): Ancestral trait or multiple acquisitions?","authors":"Elena A. Gerasimova, Yulia V. Mindolina, Denis V. Tikhonenkov, Vladimir Y. Kataev, Alexander S. Balkin, Kirill V. Mikhailov, Dmitry G. Zagumyonnyi, Andrey O. Plotnikov, Vasily V. Zlatogursky","doi":"10.1111/jeu.12992","DOIUrl":"10.1111/jeu.12992","url":null,"abstract":"Centrohelids (Haptista: Centroplasthelida) are axopodial protists with a remarkable diversity of external siliceous scale morphologies. It is believed that the last common ancestor of centrohelids had a double layer of siliceous scales composed of plate scales closer to a cell surface and spine scales radiating outwards. The characteristic morphotype of spine scales with a heart-shaped base was once believed to be a unique feature of the genus Choanocystis, as it was defined by Siemensma and Roijackers (1988). Further research revealed that this morphology is present in different and sometimes distantly related lineages: Ozanamiidae, Meringosphaeridae, and Marophryidae. Here, we report the fourth clade, Pterocystidae, which is also revealed to contain representatives having this phenotype. Cernunnos gen. nov. is erected here to place Cernunnos uralica sp. nov., Cernunnos arctica sp. nov., Cernunnos america sp. nov., and Cernunnos antarctica Tikhonenkov et Mylnikov, 2010, Gerasimova comb. nov. C. uralica was studied with scanning electron microscopy and SSU rDNA sequencing. Molecular phylogenetic analysis placed it into marine environmental clade P within Pterocystida. The ubiquity of spine scales with heart-shaped bases could be an example of parallel evolution, but taking into account the considerable similarity it is likely an ancestral trait, acquired from the last common ancestor of centrohelids.","PeriodicalId":15672,"journal":{"name":"Journal of Eukaryotic Microbiology","volume":"70 6","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-07-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9779599","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

Interpreting phylogenetic placements for taxonomic assignment of environmental DNA 环境DNA分类分配的系统发育定位解释

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-07-13 DOI: 10.1111/jeu.12990

Isabelle Ewers, Lubomír Rajter, Lucas Czech, Frédéric Mahé, Alexandros Stamatakis, Micah Dunthorn

{"title":"Interpreting phylogenetic placements for taxonomic assignment of environmental DNA","authors":"Isabelle Ewers, Lubomír Rajter, Lucas Czech, Frédéric Mahé, Alexandros Stamatakis, Micah Dunthorn","doi":"10.1111/jeu.12990","DOIUrl":"10.1111/jeu.12990","url":null,"abstract":"Taxonomic assignment of operational taxonomic units (OTUs) is an important bioinformatics step in analyzing environmental sequencing data. Pairwise alignment and phylogenetic‐placement methods represent two alternative approaches to taxonomic assignments, but their results can differ. Here we used available colpodean ciliate OTUs from forest soils to compare the taxonomic assignments of VSEARCH (which performs pairwise alignments) and EPA‐ng (which performs phylogenetic placements). We showed that when there are differences in taxonomic assignments between pairwise alignments and phylogenetic placements at the subtaxon level, there is a low pairwise similarity of the OTUs to the reference database. We then showcase how the output of EPA‐ng can be further evaluated using GAPPA to assess the taxonomic assignments when there exist multiple equally likely placements of an OTU, by taking into account the sum over the likelihood weights of the OTU placements within a subtaxon, and the branch distances between equally likely placement locations. We also inferred the evolutionary and ecological characteristics of the colpodean OTUs using their placements within subtaxa. This study demonstrates how to fully analyze the output of EPA‐ng, by using GAPPA in conjunction with knowledge of the taxonomic diversity of the clade of interest.","PeriodicalId":15672,"journal":{"name":"Journal of Eukaryotic Microbiology","volume":"70 5","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-07-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/jeu.12990","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10181404","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

Molecular phylogenetics of sessile Dolium sedentarium, a petalomonad euglenid 叶柄蓼属无柄蓼的分子系统发育

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-07-09 DOI: 10.1111/jeu.12991

Gordon Lax, Patrick J. Keeling

{"title":"Molecular phylogenetics of sessile Dolium sedentarium, a petalomonad euglenid","authors":"Gordon Lax, Patrick J. Keeling","doi":"10.1111/jeu.12991","DOIUrl":"10.1111/jeu.12991","url":null,"abstract":"The euglenids are a species-rich group of flagellates with varying modes of nutrition that can be found in diverse habitats. Phagotrophic members of this group gave rise to phototrophs and hold the key to understanding the evolution of euglenids as a whole, including the evolution of complex morphological characters like the euglenid pellicle. Yet to understand the evolution of these characters, a comprehensive sampling of molecular data is needed to correlate morphological and molecular data, and to estimate a basic phylogenetic backbone of the group. While the availability of SSU rDNA and, more recently, multigene data from phagotrophic euglenids has improved, several “orphan” taxa remain without any molecular data whatsoever. Dolium sedentarium is one such taxon: It is a rarely-observed phagotrophic euglenid that inhabits tropical benthic environments and is one of few known sessile euglenids. Based on morphological characters, it has been thought of as part of the earliest branch of euglenids, the Petalomonadida. We report the first molecular sequencing data for Dolium using single-cell transcriptomics, adding another small piece in the puzzle of euglenid evolution. Both SSU rDNA and multigene phylogenies confirm it as a solitary branch within Petalomonadida.","PeriodicalId":15672,"journal":{"name":"Journal of Eukaryotic Microbiology","volume":"70 5","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-07-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/jeu.12991","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10128218","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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: 1

Fine structure and molecular characterization of two new parabasalid species that naturally colonize laboratory mice, Tritrichomonas musculus and Tritrichomonas casperi 实验小鼠自然定植的两种新的副拟虫种——肌肉毛滴虫和casperi毛滴虫的精细结构和分子特征。

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-06-10 DOI: 10.1111/jeu.12989

Leila Tuzlak, Eliza V. C. Alves-Ferreira, Cindi L. Schwartz, Andrea Kennard, Jacqueline M. Leung, Christina Shehata, Michael E. Grigg

{"title":"Fine structure and molecular characterization of two new parabasalid species that naturally colonize laboratory mice, Tritrichomonas musculus and Tritrichomonas casperi","authors":"Leila Tuzlak, Eliza V. C. Alves-Ferreira, Cindi L. Schwartz, Andrea Kennard, Jacqueline M. Leung, Christina Shehata, Michael E. Grigg","doi":"10.1111/jeu.12989","DOIUrl":"10.1111/jeu.12989","url":null,"abstract":"Tritrichomonas muris is a common flagellated protist isolated from the cecum of wild rodents. This commensal protist has been shown previously to alter immune phenotypes in laboratory mice. Other trichomonads, referred to as Tritrichomonas musculis and Tritrichomonas rainier, also naturally colonize laboratory mice and cause immune alterations. This report formally describes two new trichomonads, Tritrichomonas musculus n. sp., and Tritrichomonas casperi n. sp., at the ultrastructural and molecular level. These two protists were isolated from laboratory mice and were differentiated by their size and the structure of their undulating membrane and posterior flagellum. Analysis at the 18S rRNA and trans-ITS genetic loci supported their designation as distinct species, related to T. muris. To assess the true extent of parabasalid diversity infecting laboratory mice, 135 mice bred at the National Institutes of Health (NIH) were screened using pan-parabasalid primers that amplify the trans-ITS region. Forty-four percent of mice were positive for parabasalids, encompassing a total of eight distinct sequence types. Tritrichomonas casperi and Trichomitus-like protists were dominant. T. musculus and T. rainier were also detected, but T. muris was not. Our work establishes a previously underappreciated diversity of commensal trichomonad flagellates that naturally colonize the enteric cavity of laboratory mice.","PeriodicalId":15672,"journal":{"name":"Journal of Eukaryotic Microbiology","volume":"70 6","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-06-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10261971","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

True molecular phylogenetic position of the cockroach gut commensal Lophomonas blattarum (Lophomonadida, Parabasalia) 蟑螂肠道共生体blattarum (Lophomonadida, Parabasalia)的真分子系统发育定位

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-06-08 DOI: 10.1111/jeu.12988

LeAnn Nguyen, Stephen J. Taerum, Daniel E. Jasso-Selles, Claudio H. Slamovits, Jeffrey D. Silberman, Gillian H. Gile

引用次数: 1

New Parabasalia symbionts Snyderella spp. and Daimonympha gen. nov. from South American Rugitermes termites and the parallel evolution of a cell with a rotating “head” 南美白蚁中新的副白蚁共生体Snyderella sp .和Daimonympha gen. 11 .以及一个具有旋转“头”的细胞的平行进化

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-06-06 DOI: 10.1111/jeu.12987

Elisabeth Hehenberger, Vittorio Boscaro, Erick R. James, Yoshihisa Hirakawa, Morelia Trznadel, Mahara Mtawali, Rebecca Fiorito, Javier del Campo, Anna Karnkowska, Martin Kolisko, Nicholas A. T. Irwin, Varsha Mathur, Rudolf H. Scheffrahn, Patrick J. Keeling

{"title":"New Parabasalia symbionts Snyderella spp. and Daimonympha gen. nov. from South American Rugitermes termites and the parallel evolution of a cell with a rotating “head”","authors":"Elisabeth Hehenberger, Vittorio Boscaro, Erick R. James, Yoshihisa Hirakawa, Morelia Trznadel, Mahara Mtawali, Rebecca Fiorito, Javier del Campo, Anna Karnkowska, Martin Kolisko, Nicholas A. T. Irwin, Varsha Mathur, Rudolf H. Scheffrahn, Patrick J. Keeling","doi":"10.1111/jeu.12987","DOIUrl":"10.1111/jeu.12987","url":null,"abstract":"Most Parabasalia are symbionts in the hindgut of “lower” (non-Termitidae) termites, where they widely vary in morphology and degree of morphological complexity. Large and complex cells in the class Cristamonadea evolved by replicating a fundamental unit, the karyomastigont, in various ways. We describe here four new species of Calonymphidae (Cristamonadea) from Rugitermes hosts, assigned to the genus Snyderella based on diagnostic features (including the karyomastigont pattern) and molecular phylogeny. We also report a new genus of Calonymphidae, Daimonympha, from Rugitermes laticollis. Daimonympha's morphology does not match that of any known Parabasalia, and its SSU rRNA gene sequence corroborates this distinction. Daimonympha does however share a puzzling feature with a few previously described, but distantly related, Cristamonadea: a rapid, smooth, and continuous rotation of the anterior end of the cell, including the many karyomastigont nuclei. The function of this rotatory movement, the cellular mechanisms enabling it, and the way the cell deals with the consequent cell membrane shear, are all unknown. “Rotating wheel” structures are famously rare in biology, with prokaryotic flagella being the main exception; these mysterious spinning cells found only among Parabasalia are another, far less understood, example.","PeriodicalId":15672,"journal":{"name":"Journal of Eukaryotic Microbiology","volume":"70 5","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/jeu.12987","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10498254","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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: 1

Comparison between p-distance and single-locus species delimitation models for delineating reproductively tested strains of pennate diatoms (Bacillariophyceae) using cox1, rbcL and ITS 利用cox1、rbcL和ITS对三角藻（硅藻科）繁殖试验菌株进行划分的p距离和单位点物种划分模型的比较。

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-05-26 DOI: 10.1111/jeu.12986

Andréa de O. da R. Franco, Matt P. Ashworth, Clarisse Odebrecht

{"title":"Comparison between p-distance and single-locus species delimitation models for delineating reproductively tested strains of pennate diatoms (Bacillariophyceae) using cox1, rbcL and ITS","authors":"Andréa de O. da R. Franco, Matt P. Ashworth, Clarisse Odebrecht","doi":"10.1111/jeu.12986","DOIUrl":"10.1111/jeu.12986","url":null,"abstract":"Several automated molecular methods have emerged for distinguishing eukaryote species based on DNA sequence data. However, there are knowledge gaps around which of these single-locus methods is more accurate for the identification of microalgal species, such as the highly diverse and ecologically relevant diatoms. We applied genetic divergence, Automatic Barcode Gap Discovery for primary species delimitation (ABGD), Assemble Species by Automatic Partitioning (ASAP), Statistical Parsimony Network Analysis (SPNA), Generalized Mixed Yule Coalescent (GMYC) and Poisson Tree Processes (PTP) using partial cox1, rbcL, 5.8S + ITS2, ITS1 + 5.8S + ITS2 markers to delineate species and compare to published polyphasic identification data (morphological features, phylogeny and sexual reproductive isolation) to test the resolution of these methods. ASAP, ABGD, SPNA and PTP models resolved species of Eunotia, Seminavis, Nitzschia, Sellaphora and Pseudo-nitzschia corresponding to previous polyphasic identification, including reproductive isolation studies. In most cases, these models identified diatom species in similar ways, regardless of sequence fragment length. GMYC model presented smallest number of results that agreed with previous published identification. Following the recommendations for proper use of each model presented in the present study, these models can be useful tools to identify cryptic or closely related species of diatoms, even when the datasets have relatively few sequences.","PeriodicalId":15672,"journal":{"name":"Journal of Eukaryotic Microbiology","volume":"70 5","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-05-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10125645","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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: 1

On stomatocysts of Paraphysomonas caelifrica (Stramenopiles, Paraphysomonadida) 盲肠副藻（Stramenopiles，Paraphysoonadida）的气孔囊泡。

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-05-22 DOI: 10.1111/jeu.12979

Dmitry Kapustin, Marina Ignatenko, Tatyana Yatsenko-Stepanova

引用次数: 0

Identification and validation of novel Blastocystis subtype ST41 in a Colombian patient undergoing colorectal cancer screening 在接受结直肠癌筛查的哥伦比亚患者中鉴定和验证新型囊虫亚型ST41

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-05-17 DOI: 10.1111/jeu.12978

Carolina Hernández-Castro, Jenny G. Maloney, Sonia P. Agudelo-López, Miguel A. Toro-Londoño, Jorge H. Botero-Garcés, María C. Orozco, Yulieth C. Quintero-Quinchia, Juan C. Correa-Cote, Alejandro Múnera-Duque, Juan C. Ricaurte-Ciro, Luis I. Londoño-Álvarez, René M. Escobar, Pamela C. Köster, Sergio Sánchez, David Carmena, Mónica Santín

{"title":"Identification and validation of novel Blastocystis subtype ST41 in a Colombian patient undergoing colorectal cancer screening","authors":"Carolina Hernández-Castro, Jenny G. Maloney, Sonia P. Agudelo-López, Miguel A. Toro-Londoño, Jorge H. Botero-Garcés, María C. Orozco, Yulieth C. Quintero-Quinchia, Juan C. Correa-Cote, Alejandro Múnera-Duque, Juan C. Ricaurte-Ciro, Luis I. Londoño-Álvarez, René M. Escobar, Pamela C. Köster, Sergio Sánchez, David Carmena, Mónica Santín","doi":"10.1111/jeu.12978","DOIUrl":"10.1111/jeu.12978","url":null,"abstract":"Blastocystis sp. is among the most frequent intestinal protists identified in humans globally. However, characterization of Blastocystis subtype diversity in humans is ongoing. We report here the identification of novel Blastocystis subtype ST41 in a Colombian patient undergoing colorectal cancer screening involving colonoscopy and fecal testing (microscopy, culture, PCR). The full-length ssu rRNA gene sequence of the protist was generated using MinION long-read sequencing technology. The validity of the novel subtype was confirmed via phylogenetic and pairwise distance analyses of the full-length ST41 sequence and all other valid subtypes. The study provides reference material essential for conducting subsequent experimental studies.","PeriodicalId":15672,"journal":{"name":"Journal of Eukaryotic Microbiology","volume":"70 5","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-05-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10121973","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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: 3

Vegetative cell fusion and a new stage in the life cycle of the Aphelida (Opisthosporidia) 无孢子虫(Opisthosporidia)营养细胞融合与生命周期新阶段

IF 2.2 4区生物学

Journal of Eukaryotic Microbiology Pub Date : 2023-04-13 DOI: 10.1111/jeu.12977

Victoria S. Tcvetkova, Igor R. Pozdnyakov, Alexei O. Seliuk, Natalia A. Zorina, Sergey A. Karpov

引用次数: 1