IF 2.5 3区生物学

Protist Pub Date : 2024-01-27 DOI: 10.1016/j.protis.2024.126018

Metody Hollender, Marta Sałek, Michał Karlicki, Anna Karnkowska

{"title":"Single-cell genomics revealed Candidatus Grellia alia sp. nov. as an endosymbiont of Eutreptiella sp. (Euglenophyceae)","authors":"Metody Hollender, Marta Sałek, Michał Karlicki, Anna Karnkowska","doi":"10.1016/j.protis.2024.126018","DOIUrl":"10.1016/j.protis.2024.126018","url":null,"abstract":"<div>Though endosymbioses between protists and prokaryotes are widespread, certain host lineages have received disproportionate attention what may indicate either a predisposition to such interactions or limited studies on certain protist groups due to lack of cultures. The euglenids represent one such group in spite of microscopic observations showing intracellular bacteria in some strains. Here, we perform a comprehensive molecular analysis of a previously identified endosymbiont in the Eutreptiella sp. CCMP3347 using a single cell approach and bulk culture sequencing. The genome reconstruction of this endosymbiont allowed the description of a new endosymbiont Candidatus Grellia alia sp. nov. from the family Midichloriaceae. Comparative genomics revealed a remarkably complete conjugative type IV secretion system present in three copies on the plasmid sequences of the studied endosymbiont, a feature missing in the closely related Grellia incantans. This study addresses the challenge of limited host cultures with endosymbionts by showing that the genomes of endosymbionts reconstructed from single host cells have the completeness and contiguity that matches or exceeds those coming from bulk cultures. This paves the way for further studies of endosymbionts in euglenids and other protist groups. The research also provides the opportunity to study the diversity of endosymbionts in natural populations.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 2","pages":"Article 126018"},"PeriodicalIF":2.5,"publicationDate":"2024-01-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1434461024000105/pdfft?md5=dd511c0b822f3e967d63e6ba4dc1dfc7&pid=1-s2.0-S1434461024000105-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139590216","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

On Saville-Kent's “a Manual of the infusoria” 关于萨维尔-肯特的 "输卵管手册"

IF 2.5 3区生物学

Protist Pub Date : 2023-12-23 DOI: 10.1016/j.protis.2023.126008

John R. Dolan

引用次数: 0

Morphogenesis of an anaerobic ciliate Heterometopus palaeformis (Kahl, 1927) Foissner, 2016 (Ciliophora, Armophorea) with notes on its morphological and molecular characterization 厌氧纤毛虫 Heterometopus palaeformis (Kahl, 1927) Foissner, 2016（纤毛虫，腕足动物）的形态发生及其形态和分子特征说明

IF 2.5 3区生物学

Protist Pub Date : 2023-12-16 DOI: 10.1016/j.protis.2023.126007

Wenbao Zhuang , Xiaochen Feng , Ran Li , Saleh A. Al-Farraj , Xiaozhong Hu

{"title":"Morphogenesis of an anaerobic ciliate Heterometopus palaeformis (Kahl, 1927) Foissner, 2016 (Ciliophora, Armophorea) with notes on its morphological and molecular characterization","authors":"Wenbao Zhuang , Xiaochen Feng , Ran Li , Saleh A. Al-Farraj , Xiaozhong Hu","doi":"10.1016/j.protis.2023.126007","DOIUrl":"10.1016/j.protis.2023.126007","url":null,"abstract":"<div>The morphology, morphogenesis, and molecular phylogeny of Heterometopus palaeformis (Kahl, 1927) Foissner, 2016 were studied using microscopical observations on live and protargol-stained specimens as well SSU rRNA gene sequencing. The morphogenetic data for the genus are presented for the first time. Compared to other metopids, the morphogenesis of H. palaeformis is distinct since its (1) perizonal stripe rows 4 and 5 are involved in the formation of the opisthe’s adoral polykinetids; (2) perizonal stripe rows 3–5 and two adjacent preoral dome kineties contribute to most of the opisthe’s paroral membrane while perizonal stripe rows 1 and 2 contribute very little; (3) four kinety rows are formed to the left of the opisthe’s adoral zone of polykinetids. The Chinese population resembles the original and neotype populations well in terms of general morphology — characterized by a life size of 55–120 × 10–20 μm, an elongate ellipsoidal body with a hardly spiralized flat preoral dome, about 18 somatic kineties and 20 adoral polykinetids. The SSU rDNA sequence of the present population exhibits a disparity of 1.33%–2.22% divergence from sequences of other populations. Nevertheless, phylogenetic analysis reveals that populations of H. palaeformis form a separate, stable cluster within the paraphyletic Metopidae clade.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 1","pages":"Article 126007"},"PeriodicalIF":2.5,"publicationDate":"2023-12-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138743209","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

Boosting algicidal efficiency of Alteromonas sp. FDHY-CJ against Skeletonema costatum through fermentation optimization 通过发酵优化提高 Alteromonas sp. FDHY-CJ 对 Skeletonema costatum 的杀菌效率

IF 2.5 3区生物学

Protist Pub Date : 2023-12-12 DOI: 10.1016/j.protis.2023.126006

Pin Lv , Xinguo Shi , Qianqian Wang , Yuying Zhong , Yisong Guo , Jianfeng Chen

{"title":"Boosting algicidal efficiency of Alteromonas sp. FDHY-CJ against Skeletonema costatum through fermentation optimization","authors":"Pin Lv , Xinguo Shi , Qianqian Wang , Yuying Zhong , Yisong Guo , Jianfeng Chen","doi":"10.1016/j.protis.2023.126006","DOIUrl":"10.1016/j.protis.2023.126006","url":null,"abstract":"<div>Algicidal bacteria exhibit promising potential against harmful algal blooms (HABs); however, their application has been limited due to their limited algicidal activity. This study demonstrates the enhanced algicidal activity of Alteromonas sp. FDHY-CJ bacteria against harmful Skeletonema costatum using a 5 L fermenter. Utilizing this refined framework increased the OD600 value and algal cell mortality by 6.50 and 2.88 times, respectively, compared to non-optimized culture cultivated in a flask using marine broth 2216E medium. The mechanism of action involves significant inhibition of algal photosynthetic efficiency with concurrent degradation of photosynthetic pigments. Relative to the non-optimized group, the optimized bacterial treatment led to a significant increase in H2O2 and MDA (malondialdehyde) by 19.54 and 4.22-fold, respectively, and resulted in membrane damage. The culture optimization procedure yielded effectual algicidal substances capable of considerably reducing the severity of S. costatum HABs through cell membrane disruption.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"175 1","pages":"Article 126006"},"PeriodicalIF":2.5,"publicationDate":"2023-12-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138580168","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

Gleaning Euglenozoa-specific DNA polymerases in public single-cell transcriptome data 在公开的单细胞转录组数据中收集真核生物特异性DNA聚合酶。

IF 2.5 3区生物学

Protist Pub Date : 2023-12-01 DOI: 10.1016/j.protis.2023.125997

Ryo Harada , Yuji Inagaki

{"title":"Gleaning Euglenozoa-specific DNA polymerases in public single-cell transcriptome data","authors":"Ryo Harada , Yuji Inagaki","doi":"10.1016/j.protis.2023.125997","DOIUrl":"10.1016/j.protis.2023.125997","url":null,"abstract":"<div>Multiple genes encoding family A DNA polymerases (famA DNAPs), which are evolutionary relatives of DNA polymerase I (PolI) in bacteria and phages, have been found in eukaryotic genomes, and many of these proteins are used mainly in organelles. Among members of the phylum Euglenozoa, distinct types of famA DNAP, PolIA, PolIBCD+, POP, and eugPolA, have been found. It is intriguing how the suite of famA DNAPs had been established during the evolution of Euglenozoa, but the DNAP data have not been sampled from the taxa that sufficiently represent the diversity of this phylum. In particular, little sequence data were available for basal branching species in Euglenozoa until recently. Thanks to the single-cell transcriptome data from symbiontids and phagotrophic euglenids, we have an opportunity to cover the “hole” in the repertory of famA DNAPs in the deep branches in Euglenozoa. The current study identified 16 new famA DNAP sequences in the transcriptome data from 33 phagotrophic euglenids and two symbiontids, respectively. Based on the new famA DNAP sequences, the updated diversity and evolution of famA DNAPs in Euglenozoa are discussed.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"174 6","pages":"Article 125997"},"PeriodicalIF":2.5,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138470717","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

Understanding wax ester synthesis in Euglena gracilis: Insights into mitochondrial anaerobic respiration 了解薄叶草蜡酯合成:线粒体厌氧呼吸的见解

IF 2.5 3区生物学

Protist Pub Date : 2023-12-01 DOI: 10.1016/j.protis.2023.125996

Masami Nakazawa , Hiroshi Inui

{"title":"Understanding wax ester synthesis in Euglena gracilis: Insights into mitochondrial anaerobic respiration","authors":"Masami Nakazawa , Hiroshi Inui","doi":"10.1016/j.protis.2023.125996","DOIUrl":"https://doi.org/10.1016/j.protis.2023.125996","url":null,"abstract":"<div>Euglena gracilis, photosynthetic protist, has a unique ability to generate wax esters in the absence of oxygen, employing a distinctive fatty acid synthesis mechanism. Through comprehensive inhibitor assays and gene-silencing techniques, our research clearly emphasized the indispensable role of the mitochondrial anaerobic respiratory chain in this biosynthesis. We identified acyl-CoA dehydrogenase, electron transfer flavoprotein (ETF), and rhodoquinone (RQ) as central molecular components in the pathway. These findings strongly indicated a potential reversal of beta-oxidation occurring within mitochondria for fatty acid production in anaerobic conditions. Furthermore, our analysis revealed the pivotal function of nicotinamide nucleotide transhydrogenase (NNT) in efficiently managing the NADPH/NAD+ conversion essential for sustaining anaerobic metabolism. This review outlines our key findings and provides a comprehensive understanding of the molecular mechanisms that enable E. gracilis to produce wax ester anaerobically.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"174 6","pages":"Article 125996"},"PeriodicalIF":2.5,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138471651","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

First record of Colpodidium caudatum (Ciliophora, Colpodidiidae) in Europe 欧洲首次记录尾足蝗(纤毛蝗科，尾足蝗科)

IF 2.5 3区生物学

Protist Pub Date : 2023-11-08 DOI: 10.1016/j.protis.2023.125995

Juan Rodero Madrid , José Luis Olmo , Genoveva F. Esteban

{"title":"First record of Colpodidium caudatum (Ciliophora, Colpodidiidae) in Europe","authors":"Juan Rodero Madrid , José Luis Olmo , Genoveva F. Esteban","doi":"10.1016/j.protis.2023.125995","DOIUrl":"10.1016/j.protis.2023.125995","url":null,"abstract":"<div>The present study documents the discovery of the first European population of Colpodidium caudatum (Ciliophora, Colpodidiidae) in a water drain in a school playground in Manzanares (Ciudad Real, Spain). This species has been documented on every continent except Antarctica and Europe, until now. The ciliate was isolated from wet run-off soil collected from the water drain and was grown in semi-permanent cultures in the laboratory. The infraciliature of the ciliate was revealed using silver carbonate impregnation and cell measurements were taken from living and silver-impregnated specimens. A comparative analysis of published data from various populations of C. caudatum across the globe showed high intraspecific morphological variability in this species. To differentiate between species within the Colpodidium genus, a dichotomous key is presented. This investigation shows that C. caudatum is a ciliate that is found all over the world and is particularly associated with terrestrial habitats that are periodically flooded.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"174 6","pages":"Article 125995"},"PeriodicalIF":2.5,"publicationDate":"2023-11-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1434461023000573/pdfft?md5=0b4c309713a1303141c73cafeb2ab4fc&pid=1-s2.0-S1434461023000573-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135514634","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

A three-genome ultraconserved element phylogeny of cryptophytes 隐生植物的三基因组超保守元件系统发育。

IF 2.5 3区生物学

Protist Pub Date : 2023-11-02 DOI: 10.1016/j.protis.2023.125994

Matthew J. Greenwold , Kristiaän Merritt , Tammi L. Richardson , Jeffry L. Dudycha

{"title":"A three-genome ultraconserved element phylogeny of cryptophytes","authors":"Matthew J. Greenwold , Kristiaän Merritt , Tammi L. Richardson , Jeffry L. Dudycha","doi":"10.1016/j.protis.2023.125994","DOIUrl":"10.1016/j.protis.2023.125994","url":null,"abstract":"<div>Cryptophytes are single celled protists found in all aquatic environments. They are composed of a heterotrophic genus, Goniomonas, and a largely autotrophic group comprising many genera. Cryptophytes evolved through secondary endosymbiosis between a host eukaryotic heterotroph and a symbiont red alga. This merger resulted in a four-genome system that includes the nuclear and mitochondrial genomes from the host and a second nuclear genome (nucleomorph) and plastid genome inherited from the symbiont. Here, we make use of different genomes (with potentially distinct evolutionary histories) to perform a phylogenomic study of the early history of cryptophytes. Using ultraconserved elements from the host nuclear genome and symbiont nucleomorph and plastid genomes, we produce a three-genome phylogeny of 91 strains of cryptophytes. Our phylogenetic analyses find that that there are three major cryptophyte clades: Clade 1 comprises Chroomonas and Hemiselmis species, Clade 2, a taxonomically rich clade, comprises at least twelve genera, and Clade 3, comprises the heterotrophic Goniomonas species. Each of these major clades include both freshwater and marine species, but subclades within these clades differ in degrees of niche conservatism. Finally, we discuss priorities for taxonomic revision to Cryptophyceae based on previous studies and in light of these phylogenomic analyses.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"174 6","pages":"Article 125994"},"PeriodicalIF":2.5,"publicationDate":"2023-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71485252","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

Ciliates from the faeces of the free-ranging dromedary from Oman: Morphology and molecular phylogeny 阿曼自由放养单峰骆驼粪便中的纤毛虫：形态学和分子系统发育。

IF 2.5 3区生物学

Protist Pub Date : 2023-10-10 DOI: 10.1016/j.protis.2023.125993

Olga A. Kornilova , Anna I. Ganyukova , Maria E. Belokon , Vladimir V. Platonov , Ludmila V. Chistyakova

{"title":"Ciliates from the faeces of the free-ranging dromedary from Oman: Morphology and molecular phylogeny","authors":"Olga A. Kornilova , Anna I. Ganyukova , Maria E. Belokon , Vladimir V. Platonov , Ludmila V. Chistyakova","doi":"10.1016/j.protis.2023.125993","DOIUrl":"10.1016/j.protis.2023.125993","url":null,"abstract":"<div>Ciliates Infundibulorium cameli from the faeces of the free-ranging dromedary from Oman were studied using a set of methods of the light and immunofluorescence microscopy and molecular phylogeny. With the use of molecular genetic methods, it was confirmed that the cysts found in the samples simultaneously with trophozoites actually belong to the species I. cameli. Tubulin cytoskeleton organization of trophozoites and cysts of this species were described for the first time. A striking morphological similarity between species I. cameli and Buxtonella sulcata was demonstrated, including the organization of ciliature. Different isolates of I. cameli and B. sulcata formed a common clade on the phylogenetic tree. The level of evolutionary divergence between the 18 S rRNA sequences of I. cameli, B. sulcata and species closest to them according to the results of molecular phylogenetic analysis was estimated. It was demonstrated that the divergence between I. cameli and B. sulcata is extremely low compared to members of other genera included in the analysis. Taxonomic position of I. cameli and B. sulcata was discussed in according to the data of comparative morphology and molecular phylogeny</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"174 6","pages":"Article 125993"},"PeriodicalIF":2.5,"publicationDate":"2023-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41238099","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

Taxonomy and morphology of Calciopappus curvus sp. nov. (Syracosphaeraceae, Prymnesiophyceae), a novel appendage-bearing coccolithophore 一种新的附肢球石藻Calciopapus curvus sp.nov.的分类和形态。

IF 2.5 3区生物学

Protist Pub Date : 2023-10-01 DOI: 10.1016/j.protis.2023.125983

Odysseas A. Archontikis , Josué G. Millán , Harald Andruleit , Lluïsa Cros , Annelies Kleijne , Mikal Heldal , Hai Doan-Nhu , Amos Winter , Leocadio Blanco-Bercial , Jeremy R. Young

{"title":"Taxonomy and morphology of Calciopappus curvus sp. nov. (Syracosphaeraceae, Prymnesiophyceae), a novel appendage-bearing coccolithophore","authors":"Odysseas A. Archontikis , Josué G. Millán , Harald Andruleit , Lluïsa Cros , Annelies Kleijne , Mikal Heldal , Hai Doan-Nhu , Amos Winter , Leocadio Blanco-Bercial , Jeremy R. Young","doi":"10.1016/j.protis.2023.125983","DOIUrl":"10.1016/j.protis.2023.125983","url":null,"abstract":"<div>Based on scanning electron microscopy observations, a new species of the coccolithophore genus Calciopappus (Syracosphaeraceae, Prymnesiophyceae) is described from the surface waters off Bergen and from the lower photic zone of sub-tropical and tropical waters. Morphological, coccolith rim structure and biometric analyses strongly support separation of this morphotype from the two described Calciopappus species, but inclusion of it within the genus. The new form differs from the other species in being noticeably smaller and in morpho-structural details of each of the three coccolith types that form the coccosphere: (1) the body coccoliths have an open central area; (2) the whorl coccoliths have a wide central opening and two thumb-like protrusions; and (3) the appendage coccoliths are curved. On this basis, the species is formally described as Calciopappus curvus sp. nov., its systematic affinity is discussed and compared with other extant coccolithophores.</div>","PeriodicalId":20781,"journal":{"name":"Protist","volume":"174 5","pages":"Article 125983"},"PeriodicalIF":2.5,"publicationDate":"2023-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10603720","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

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