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  1. Article ; Online: Gene dosage of independent dynein arm motor preassembly factors influences cilia assembly in Chlamydomonas reinhardtii.

    Penny, Gervette M / Dutcher, Susan K

    PLoS genetics

    2024  Volume 20, Issue 3, Page(s) e1011038

    Abstract: Motile cilia assembly utilizes over 800 structural and cytoplasmic proteins. Variants in approximately 58 genes cause primary ciliary dyskinesia (PCD) in humans, including the dynein arm (pre)assembly factor (DNAAF) gene DNAAF4. In humans, outer dynein ... ...

    Abstract Motile cilia assembly utilizes over 800 structural and cytoplasmic proteins. Variants in approximately 58 genes cause primary ciliary dyskinesia (PCD) in humans, including the dynein arm (pre)assembly factor (DNAAF) gene DNAAF4. In humans, outer dynein arms (ODAs) and inner dynein arms (IDAs) fail to assemble motile cilia when DNAAF4 function is disrupted. In Chlamydomonas reinhardtii, a ciliated unicellular alga, the DNAAF4 ortholog is called PF23. The pf23-1 mutant assembles short cilia and lacks IDAs, but partially retains ODAs. The cilia of a new null allele (pf23-4) completely lack ODAs and IDAs and are even shorter than cilia from pf23-1. In addition, PF23 plays a role in the cytoplasmic modification of IC138, a protein of the two-headed IDA (I1/f). As most PCD variants in humans are recessive, we sought to test if heterozygosity at two genes affects ciliary function using a second-site non-complementation (SSNC) screening approach. We asked if phenotypes were observed in diploids with pairwise heterozygous combinations of 21 well-characterized ciliary mutant Chlamydomonas strains. Vegetative cultures of single and double heterozygous diploid cells did not show SSNC for motility phenotypes. When protein synthesis is inhibited, wild-type Chlamydomonas cells utilize the pool of cytoplasmic proteins to assemble half-length cilia. In this sensitized assay, 8 double heterozygous diploids with pf23 and other DNAAF mutations show SSNC; they assemble shorter cilia than wild-type. In contrast, double heterozygosity of the other 203 strains showed no effect on ciliary assembly. Immunoblots of diploids heterozygous for pf23 and wdr92 or oda8 show that PF23 is reduced by half in these strains, and that PF23 dosage affects phenotype severity. Reductions in PF23 and another DNAAF in diploids affect the ability to assemble ODAs and IDAs and impedes ciliary assembly. Thus, dosage of multiple DNAAFs is an important factor in cilia assembly and regeneration.
    MeSH term(s) Humans ; Chlamydomonas reinhardtii/genetics ; Chlamydomonas reinhardtii/metabolism ; Cilia/genetics ; Cilia/metabolism ; Mutation ; Dyneins/genetics ; Dyneins/metabolism ; Proteins/genetics ; Chlamydomonas/genetics ; Chlamydomonas/metabolism ; Gene Dosage ; Axoneme/genetics ; Axoneme/metabolism
    Chemical Substances Dyneins (EC 3.6.4.2) ; Proteins
    Language English
    Publishing date 2024-03-18
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2186725-2
    ISSN 1553-7404 ; 1553-7390
    ISSN (online) 1553-7404
    ISSN 1553-7390
    DOI 10.1371/journal.pgen.1011038
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Dynein tails: how to hitch a ride on an IFT train.

    Dutcher, Susan K

    Nature structural & molecular biology

    2019  Volume 26, Issue 9, Page(s) 760–761

    Language English
    Publishing date 2019-06-10
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2126708-X
    ISSN 1545-9985 ; 1545-9993
    ISSN (online) 1545-9985
    ISSN 1545-9993
    DOI 10.1038/s41594-019-0285-z
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Asymmetries in the cilia of

    Dutcher, Susan K

    Philosophical transactions of the Royal Society of London. Series B, Biological sciences

    2019  Volume 375, Issue 1792, Page(s) 20190153

    Abstract: The generation of ciliary waveforms requires the spatial and temporal regulation of dyneins. This review catalogues many of the asymmetric structures and proteins in the cilia ... ...

    Abstract The generation of ciliary waveforms requires the spatial and temporal regulation of dyneins. This review catalogues many of the asymmetric structures and proteins in the cilia of
    MeSH term(s) Chlamydomonas/physiology ; Cilia/physiology ; Electron Microscope Tomography ; Proteomics
    Language English
    Publishing date 2019-12-30
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Review
    ZDB-ID 208382-6
    ISSN 1471-2970 ; 0080-4622 ; 0264-3839 ; 0962-8436
    ISSN (online) 1471-2970
    ISSN 0080-4622 ; 0264-3839 ; 0962-8436
    DOI 10.1098/rstb.2019.0153
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Robust acoustic trapping and perturbation of single-cell microswimmers illuminate three-dimensional swimming and ciliary coordination.

    Cui, Mingyang / Dutcher, Susan K / Bayly, Philip V / Meacham, J Mark

    Proceedings of the National Academy of Sciences of the United States of America

    2023  Volume 120, Issue 25, Page(s) e2218951120

    Abstract: We report a label-free acoustic microfluidic method to confine single, cilia-driven swimming cells in space without limiting their rotational degrees of freedom. Our platform integrates a surface acoustic wave (SAW) actuator and bulk acoustic wave (BAW) ... ...

    Abstract We report a label-free acoustic microfluidic method to confine single, cilia-driven swimming cells in space without limiting their rotational degrees of freedom. Our platform integrates a surface acoustic wave (SAW) actuator and bulk acoustic wave (BAW) trapping array to enable multiplexed analysis with high spatial resolution and trapping forces that are strong enough to hold individual microswimmers. The hybrid BAW/SAW acoustic tweezers employ high-efficiency mode conversion to achieve submicron image resolution while compensating for parasitic system losses to immersion oil in contact with the microfluidic chip. We use the platform to quantify cilia and cell body motion for wildtype biciliate cells, investigating effects of environmental variables like temperature and viscosity on ciliary beating, synchronization, and three-dimensional helical swimming. We confirm and expand upon the existing understanding of these phenomena, for example determining that increasing viscosity promotes asynchronous beating. Motile cilia are subcellular organelles that propel microorganisms or direct fluid and particulate flow. Thus, cilia are critical to cell survival and human health. The unicellular alga
    MeSH term(s) Humans ; Swimming ; Acoustics ; Sound ; Cilia ; Cell Body
    Language English
    Publishing date 2023-06-12
    Publishing country United States
    Document type Journal Article ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 209104-5
    ISSN 1091-6490 ; 0027-8424
    ISSN (online) 1091-6490
    ISSN 0027-8424
    DOI 10.1073/pnas.2218951120
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  5. Article ; Online: Basal Feet: Walking to the Discovery of a Novel Hybrid Cilium.

    Fewell, Rachael M / Dutcher, Susan K

    Developmental cell

    2020  Volume 55, Issue 2, Page(s) 115–117

    Abstract: Cilia are important cell structures found on nearly all cells. In this issue of Developmental Cell, Mennella and colleagues investigate the molecular architecture of basal foot proteins in cells with primary or motile cilia and discover a hybrid cilium ... ...

    Abstract Cilia are important cell structures found on nearly all cells. In this issue of Developmental Cell, Mennella and colleagues investigate the molecular architecture of basal foot proteins in cells with primary or motile cilia and discover a hybrid cilium with a unique assembly that regulates polarity in multiciliated cells.
    MeSH term(s) Animals ; Centrioles ; Cilia ; Microscopy ; Proteins ; Walking
    Chemical Substances Proteins
    Language English
    Publishing date 2020-11-10
    Publishing country United States
    Document type Journal Article ; Comment
    ZDB-ID 2054967-2
    ISSN 1878-1551 ; 1534-5807
    ISSN (online) 1878-1551
    ISSN 1534-5807
    DOI 10.1016/j.devcel.2020.09.018
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: HY-DIN' in the Cilia: Discovery of Central Pair-related Mutations in Primary Ciliary Dyskinesia.

    Dutcher, Susan K / Brody, Steven L

    American journal of respiratory cell and molecular biology

    2019  Volume 62, Issue 3, Page(s) 281–282

    MeSH term(s) Axoneme ; Cilia ; Ciliary Motility Disorders ; Humans ; Microfilament Proteins ; Mutation
    Chemical Substances HYDIN protein, human ; Microfilament Proteins
    Language English
    Publishing date 2019-09-30
    Publishing country United States
    Document type Editorial ; Research Support, N.I.H., Extramural ; Comment
    ZDB-ID 1025960-0
    ISSN 1535-4989 ; 1044-1549
    ISSN (online) 1535-4989
    ISSN 1044-1549
    DOI 10.1165/rcmb.2019-0316ED
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: A gap-free genome assembly of Chlamydomonas reinhardtii and detection of translocations induced by CRISPR-mediated mutagenesis.

    Payne, Zachary L / Penny, Gervette M / Turner, Tychele N / Dutcher, Susan K

    Plant communications

    2022  Volume 4, Issue 2, Page(s) 100493

    Abstract: Genomic assemblies of the unicellular green alga Chlamydomonas reinhardtii have provided important resources for researchers. However, assembly errors, large gaps, and unplaced scaffolds as well as strain-specific variants currently impede many types of ... ...

    Abstract Genomic assemblies of the unicellular green alga Chlamydomonas reinhardtii have provided important resources for researchers. However, assembly errors, large gaps, and unplaced scaffolds as well as strain-specific variants currently impede many types of analysis. By combining PacBio HiFi and Oxford Nanopore long-read technologies, we generated a de novo genome assembly for strain CC-5816, derived from crosses of strains CC-125 and CC-124. Multiple methods of evaluating genome completeness and base-pair error rate suggest that the final telomere-to-telomere assembly is highly accurate. The CC-5816 assembly enabled previously difficult analyses that include characterization of the 17 centromeres, rDNA arrays on three chromosomes, and 56 insertions of organellar DNA into the nuclear genome. Using Nanopore sequencing, we identified sites of cytosine (CpG) methylation, which are enriched at centromeres. We analyzed CRISPR-Cas9 insertional mutants in the PF23 gene. Two of the three alleles produced progeny that displayed patterns of meiotic inviability that suggested the presence of a chromosomal aberration. Mapping Nanopore reads from pf23-2 and pf23-3 onto the CC-5816 genome showed that these two strains each carry a translocation that was initiated at the PF23 gene locus on chromosome 11 and joined with chromosomes 5 or 3, respectively. The translocations were verified by demonstrating linkage between loci on the two translocated chromosomes in meiotic progeny. The three pf23 alleles display the expected short-cilia phenotype, and immunoblotting showed that pf23-2 lacks the PF23 protein. Our CC-5816 genome assembly will undoubtedly provide an important tool for the Chlamydomonas research community.
    MeSH term(s) Chlamydomonas reinhardtii/genetics ; High-Throughput Nucleotide Sequencing/methods ; Mutagenesis
    Language English
    Publishing date 2022-11-17
    Publishing country China
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2590-3462
    ISSN (online) 2590-3462
    DOI 10.1016/j.xplc.2022.100493
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Alternative Splicing During the

    Pandey, Manishi / Stormo, Gary D / Dutcher, Susan K

    G3 (Bethesda, Md.)

    2020  Volume 10, Issue 10, Page(s) 3797–3810

    Abstract: Genome-wide analysis of transcriptome data ... ...

    Abstract Genome-wide analysis of transcriptome data in
    MeSH term(s) Alternative Splicing ; Cell Cycle/genetics ; Chlamydomonas reinhardtii/genetics ; Exons ; Introns
    Language English
    Publishing date 2020-10-05
    Publishing country England
    Document type Journal Article
    ZDB-ID 2629978-1
    ISSN 2160-1836 ; 2160-1836
    ISSN (online) 2160-1836
    ISSN 2160-1836
    DOI 10.1534/g3.120.401622
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  9. Article ; Online: The awesome power of dikaryons for studying flagella and basal bodies in Chlamydomonas reinhardtii.

    Dutcher, Susan K

    Cytoskeleton (Hoboken, N.J.)

    2013  Volume 71, Issue 2, Page(s) 79–94

    Abstract: Cilia/flagella and basal bodies/centrioles play key roles in human health and homeostasis. Among the organisms used to study these microtubule-based organelles, the green alga Chlamydomonas reinhardtii has several advantages. One is the existence of a ... ...

    Abstract Cilia/flagella and basal bodies/centrioles play key roles in human health and homeostasis. Among the organisms used to study these microtubule-based organelles, the green alga Chlamydomonas reinhardtii has several advantages. One is the existence of a temporary phase of the life cycle, termed the dikaryon. These cells are formed during mating when the cells fuse and the behavior of flagella from two genetically distinguishable parents can be observed. During this stage, the cytoplasms mix allowing for a defect in the flagella of one parent to be rescued by proteins from the other parent. This offers the unique advantage of adding back wild-type gene product or labeled protein at endogenous levels that can used to monitor various flagellar and basal body phenotypes. Mutants that show rescue and ones that fail to show rescue are both informative about the nature of the flagella and basal body defects. When rescue occurs, it can be used to determine the mutant gene product and to follow the temporal and spatial patterns of flagellar assembly. This review describes many examples of insights into basal body and flagellar proteins' function and assembly that have been discovered using dikaryons and discusses the potential for further analyses.
    MeSH term(s) Basal Bodies/metabolism ; Basal Bodies/physiology ; Chlamydomonas reinhardtii/anatomy & histology ; Chlamydomonas reinhardtii/metabolism ; Flagella/metabolism ; Flagella/physiology
    Language English
    Publishing date 2013-12-12
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Review
    ZDB-ID 2534372-5
    ISSN 1949-3592 ; 1949-3584
    ISSN (online) 1949-3592
    ISSN 1949-3584
    DOI 10.1002/cm.21157
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  10. Article ; Online: Ciliary central apparatus structure reveals mechanisms of microtubule patterning.

    Gui, Miao / Wang, Xiangli / Dutcher, Susan K / Brown, Alan / Zhang, Rui

    Nature structural & molecular biology

    2022  Volume 29, Issue 5, Page(s) 483–492

    Abstract: A pair of extensively modified microtubules form the central apparatus (CA) of the axoneme of most motile cilia, where they regulate ciliary motility. The external surfaces of both CA microtubules are patterned asymmetrically with large protein complexes ...

    Abstract A pair of extensively modified microtubules form the central apparatus (CA) of the axoneme of most motile cilia, where they regulate ciliary motility. The external surfaces of both CA microtubules are patterned asymmetrically with large protein complexes that repeat every 16 or 32 nm. The composition of these projections and the mechanisms that establish asymmetry and longitudinal periodicity are unknown. Here, by determining cryo-EM structures of the CA microtubules, we identify 48 different CA-associated proteins, which in turn reveal mechanisms for asymmetric and periodic protein binding to microtubules. We identify arc-MIPs, a novel class of microtubule inner protein, that bind laterally across protofilaments and remodel tubulin structure and lattice contacts. The binding mechanisms utilized by CA proteins may be generalizable to other microtubule-associated proteins. These structures establish a foundation to elucidate the contributions of individual CA proteins to ciliary motility and ciliopathies.
    MeSH term(s) Axoneme/metabolism ; Cilia/metabolism ; Microtubule-Associated Proteins/metabolism ; Microtubules/metabolism ; Tubulin/metabolism
    Chemical Substances Microtubule-Associated Proteins ; Tubulin
    Language English
    Publishing date 2022-05-16
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
    ZDB-ID 2126708-X
    ISSN 1545-9985 ; 1545-9993
    ISSN (online) 1545-9985
    ISSN 1545-9993
    DOI 10.1038/s41594-022-00770-2
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