#ISEPpapers 21: July, August, and September 2023

Your twenty-first digest of papers and preprints published by members of the International Society for Evolutionary Protistology is here. Do you like your #ISEPpapers as fresh as possible? Follow us on Mastodon or Twitter. You can also join our Facebook group. Enjoy!

Subunit composition of mitochondrial dehydrogenase complexes in diplonemid flagellates. Kristina Zahonova, Matus Valach, Pragya Tripathi, Corinna Benz, Fred R. Opperdoes, Peter Barath, Veronika Lukacova, Maksym Danchenko, Drahomira Faktorova, Anton Horvath, Gertraud Burger, Julius Lukes, Ingrid Skodova-Sverakova. Read.

Interpreting phylogenetic placements for taxonomic assignment of environmental DNA. Isabelle Ewers, Lubomír Rajter, Lucas Czech, Frédéric Mahé, Alexandros Stamatakis, Micah Dunthorn. Read.

Functional differentiation of Sec13 paralogues in the euglenozoan protists. Drahomíra Faktorová, Kristína Záhonová, Corinna Benz, Joel B. Dacks, Mark C. Field, and Julius Lukeš. Read.

Molecular and morphological characterisation of four new ancyromonad genera and proposal for an updated taxonomy of the Ancyromonadida. Naoji Yubuki, Guifré Torruella, Luis Javier Galindo, Aaron A. Heiss, Maria Cristina Ciobanu, Takashi Shiratori, Ken-ichiro Ishida, Jazmin Blaz, Eunsoo Kim, David Moreira, Purificación López-García, Laura Eme. Read.

Lessons from the deep: mechanisms behind diversification of eukaryotic protein complexes. Galina Prokopchuk, Anzhelika Butenko, Joel B. Dacks, Dave Speijer, Mark C. Field, Julius Lukeš. Read.

Host specificity of passerine Lankesterella (Apicomplexa: Coccidia). Ashwin Kumar Saravana Bhavan Venkatachalam, Ivan Čepička, Kristýna Hrazdilová, Milena Svobodová. Read.

Molecular phylogenetics of sessile Dolium sedentarium, a petalomonad euglenid. Gordon Lax, Patrick J. Keeling. Read.

Evolutionary analysis of cellular reduction and anaerobicity in the hyper-prevalent gut microbe Blastocystis. Kristína Záhonová, Ross S. Low, Christopher J. Warren, Diego Cantoni, Emily K. Herman, Lyto Yiangou, Cláudia A. Ribeiro, Yasinee Phanprasert, Ian R. Brown, Sonja Rueckert, Nicola L. Baker, Jan Tachezy, Emma L. Betts, Eleni Gentekaki, Mark van der Giezen, C. Graham Clark, Andrew P. Jackson, Joel B. Dacks, Anastasios D. Tsaousis. Read.

Enchelyothrix muria n. gen, n. sp., (Ciliophora, Litostomatea, Spathidiida), an extreme halotroph spathidiid from Maharloo Lake, Iran. Mahnaz Barmshuri, Ondřej Pomahač, William Bourland. Read.

Blastocystis in raw vegetables from street markets in northern Thailand. Vasana Jinatham, Thanawat Wandee, Chadsiri Nonebudsri, Siam Popluechai, Anastasios D. Tsaousis, Eleni Gentekaki. Read.

Construction of multiple metagenome assembled genomes containing carbon monoxide dehydrogenases from anaerobic carbon monoxide enrichment cultures. Shiho Nishida, Kimiho Omae, Masao Inoue, Yoshihiko Sako, Ryoma Kamikawa & Takashi Yoshida. Read.

Anaerocyclidiidae fam. nov. (Oligohymenophorea, Scuticociliatia): A newly recognized major lineage of anaerobic ciliates hosting prokaryotic symbionts. Kateřina Poláková, William A. Bourland, Ivan Čepička. Read.

Mapping diversity in African trypanosomes using high resolution spatial proteomics. Nicola M. Moloney, Konstantin Barylyuk, Eelco Tromer, Oliver M. Crook, Lisa M. Breckels, Kathryn S. Lilley, Ross F. Waller & Paula MacGregor. Read.

AtLASS: A Scheme for End-to-End Prediction of Splice Sites Using Attention-based Bi-LSTM. Ryo Harada, Keitaro Kume, Kazumasa Horie, Takuro Nakayama, Yuji Inagaki, Toshiyuki Amagasa. Read.

Intragenomic diversity of the V9 hypervariable domain in eukaryotes has little effect on metabarcoding. Olga Flegontova, Julius Lukeš, Aleš Horák. Read.

The free-living flagellate Paratrimastix pyriformis uses a distinct mitochondrial carrier to balance adenine nucleotide pools. Justyna Zitek, Martin King, Priscila Pena-Diaz, Eva Pyrihova, Alannah C. King, Edmund R.S. Kunji, Vladimir Hampl. Read.

Study of the Economic Impact of Cryptosporidiosis in Calves after Implementing Good Practices to Manage the Disease on Dairy Farms in Belgium, France, and the Netherlands. Maud Roblin et al. Read.

Molecular phylogeny and taxonomy of three anaerobic plagiopyleans (Alveolata: Ciliophora), retrieved from two geographically distant localities in Asia and North America. Ran Li, Wenbao Zhuang, Xiaochen Feng, Saleh A Al-Farraj, Anna Schrecengost, Johana Rotterova, Roxanne A Beinart, Xiaozhong Hu. Read.

Presence of vitamin B12 metabolism in the last common ancestor of land plants. Richard G. Dorrell, Charlotte Nef, Setsen Altan-Ochir, Chris Bowler, Alison G. Smith. Read.

Morphological and molecular characterization of a new member of the phylum Rhodelphidia. Kristina I. Prokina, Denis V. Tikhonenkov, Purificación López-García, David Moreira. Read.

Rediscovery of Remarkably Rare Anaerobic Tentaculiferous Ciliate Genera Legendrea and Dactylochlamys (Ciliophora: Litostomatea). Ondřej Pomahač, Daniel Méndez-Sánchez, Kateřina Poláková, Michael Müller, Michel-Marie Solito, William A Bourland, Ivan Čepička. Read.

Towards unraveling the origins of eukaryotic nuclear genome organization. Jolien J. E. van Hooff. Read.

Quick guide: Provora. Denis V. Tikhonenkov, Kirill V. Mikhailov, Ryan M. R. Gawryluk, Patrick J. Keeling. Read.

BioGAN: An unpaired GAN-based image to image translation model for microbiological images. Saber Mirzaee Bafti, Chee Siang Ang, Gianluca Marcelli, Md. Moinul Hossain, Sadiya Maxamhud, Anastasios D. Tsaousis. Read.

Light-driven Proton Pumps as a Potential Regulator for Carbon Fixation in Marine Diatoms. Susumu Yoshizawa, Tomonori Azuma, Keiichi Kojima, Keisuke Inomura, Masumi Hasegawa, Yosuke Nishimura, Masuzu Kikuchi, Gabrielle Armin, Yuya Tsukamoto, Hideaki Miyashita, Kentaro Ifuku, Takashi Yamano, Adrian Marchetti, Hideya Fukuzawa, Yuki Sudo, Ryoma Kamikawa. Read.

Meteora sporadica, a protist with incredible cell architecture, is related to Hemimastigophora. Yana Eglit, Takashi Shiratori, Jon Jerlström-Hultqvist, Kelsey Williamson, Andrew J. Roger, Ken-Ichiro Ishida, Alastair G. B. Simpson. Read.

Shining the spotlight on the neglected: new high-quality genome assemblies as a gateway to understanding the evolution of Trypanosomatidae. Amanda T. S. Albanaz, Mark Carrington, Alexander O. Frolov, Anna I. Ganyukova, Evgeny S. Gerasimov, Alexei Y. Kostygov, Julius Lukeš, Marina N. Malysheva, Jan Votýpka, Alexandra Zakharova, Kristína Záhonová, Sara L. Zimmer, Vyacheslav Yurchenko & Anzhelika Butenko. Read.

True molecular phylogenetic position of the cockroach gut commensal Lophomonas blattarum (Lophomonadida, Parabasalia). LeAnn Nguyen, Stephen J. Taerum, Daniel E. Jasso-Selles, Claudio H. Slamovits, Jeffrey D. Silberman, Gillian H. Gile. Read.

Hydrogenotrophic methanogenesis is the key process in the obligately syntrophic consortium of the anaerobic ameba Pelomyxa schiedti. Sebastian C. Treitli, Pavla Hanousková, Vladimír Beneš, Andreas Brune, Ivan Čepička & Vladimír Hampl. Read. SciComm: Scientists unravel symbiotic secrets of prokaryotic community living in host amoeba. Read.

Diversity of RNA viruses in the cosmopolitan monoxenous trypanosomatid Leptomonas pyrrhocoris. Diego H. Macedo et al. Read.

Trypanosomes as a magnifying glass for cell and molecular biology. Julius Lukeš et al. Read.

Comprehensive sub-mitochondrial protein map of the parasitic protist Trypanosoma brucei defines critical features of organellar biology. Jan Pyrih et al. Read.