Exploration of the Germline Genome of the Ciliate Chilodonella uncinata through Single-Cell Omics (Transcriptomics and Genomics)

MBio
Xyrus X Maurer-AlcalaLaura A Katz

Abstract

Separate germline and somatic genomes are found in numerous lineages across the eukaryotic tree of life, often separated into distinct tissues (e.g., in plants, animals, and fungi) or distinct nuclei sharing a common cytoplasm (e.g., in ciliates and some foraminifera). In ciliates, germline-limited (i.e., micronuclear-specific) DNA is eliminated during the development of a new somatic (i.e., macronuclear) genome in a process that is tightly linked to large-scale genome rearrangements, such as deletions and reordering of protein-coding sequences. Most studies of germline genome architecture in ciliates have focused on the model ciliates Oxytricha trifallax, Paramecium tetraurelia, and Tetrahymena thermophila, for which the complete germline genome sequences are known. Outside of these model taxa, only a few dozen germline loci have been characterized from a limited number of cultivable species, which is likely due to difficulties in obtaining sufficient quantities of "purified" germline DNA in these taxa. Combining single-cell transcriptomics and genomics, we have overcome these limitations and provide the first insights into the structure of the germline genome of the ciliate Chilodonella uncinata, a member of the understudied ...Continue Reading

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Citations

Mar 8, 2018·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Jean-David GrattepancheLaura A Katz
May 11, 2019·Annals of the New York Academy of Sciences·Xyrus X Maurer-Alcalá, Mariusz Nowacki
Jan 24, 2020·The Journal of Eukaryotic Microbiology·Giulia M RibeiroDaniel J G Lahr
Jun 27, 2018·Genome Biology and Evolution·Xyrus X Maurer-AlcaláLaura A Katz
May 29, 2020·Cellular and Molecular Life Sciences : CMLS·Iwona RzeszutekMariusz Nowacki
Aug 29, 2021·Journal of Genetics and Genomics = Yi Chuan Xue Bao·Chao LiYing Yan
Oct 16, 2021·Genome Research·Zarmik MoqtaderiWelcome Bender

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Datasets Mentioned

BETA
AAGF00000000
PRJNA413041

Methods Mentioned

BETA
MDS
MDSs
PCR
electrophoresis

Software Mentioned

OrthoMCL
R
SPAdes
MaSuRCA
Augustus
rnaSPAdes
BLAST

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