{"id":23,"date":"2021-12-07T21:40:03","date_gmt":"2021-12-07T21:40:03","guid":{"rendered":"http:\/\/localhost:81\/wordpress\/?page_id=23"},"modified":"2024-08-02T18:58:38","modified_gmt":"2024-08-02T18:58:38","slug":"research-interests","status":"publish","type":"page","link":"https:\/\/rosslab.colostate.edu\/?page_id=23","title":{"rendered":"Research Interests"},"content":{"rendered":"\t\t<div data-elementor-type=\"wp-page\" data-elementor-id=\"23\" class=\"elementor elementor-23\">\n\t\t\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-4286b26 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"4286b26\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-a121fe3\" data-id=\"a121fe3\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-c4ca044 elementor-widget elementor-widget-heading\" data-id=\"c4ca044\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h2 class=\"elementor-heading-title elementor-size-default\">Research Interests<\/h2>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-c25ddaf elementor-section-content-top elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"c25ddaf\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-50 elementor-top-column elementor-element elementor-element-05b8350\" data-id=\"05b8350\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-1517ad6 elementor-widget elementor-widget-heading\" data-id=\"1517ad6\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">Fundamental Features of Prion Proteins<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-a8aaa67 elementor-widget elementor-widget-text-editor\" data-id=\"a8aaa67\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>Our lab uses budding yeast to study the basic steps involved in the formation of infectious protein aggregates (&#8220;prions&#8221;). Specifically, we are interested in understanding the fundamental features of prion proteins. In yeast, a growing list of proteins have the demonstrated ability to form prions. Known prion proteins often contain strikingly Q\/N-rich prion domains. However, while this is a common feature among prion proteins, it is not sufficient to predict prion activity. Therefore, using a large-scale genetic screen, we have developed a <a href=\"http:\/\/combi.cs.colostate.edu\/supplements\/papa\/\"><b>bioinformatic method to predict prion propensity<\/b><\/a>.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t<div class=\"elementor-column elementor-col-50 elementor-top-column elementor-element elementor-element-b3bd38e\" data-id=\"b3bd38e\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-d3784cb elementor-widget elementor-widget-image\" data-id=\"d3784cb\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img fetchpriority=\"high\" decoding=\"async\" width=\"676\" height=\"502\" src=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/PAPA-Algorithm_v2-01-1024x761.jpg\" class=\"attachment-large size-large wp-image-323\" alt=\"\" srcset=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/PAPA-Algorithm_v2-01-1024x761.jpg 1024w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/PAPA-Algorithm_v2-01-300x223.jpg 300w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/PAPA-Algorithm_v2-01-768x571.jpg 768w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/PAPA-Algorithm_v2-01-1536x1141.jpg 1536w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/PAPA-Algorithm_v2-01-2048x1522.jpg 2048w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/PAPA-Algorithm_v2-01-676x502.jpg 676w\" sizes=\"(max-width: 676px) 100vw, 676px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-ad60746 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"ad60746\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-e6e4d8c\" data-id=\"e6e4d8c\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-5cfdd62 elementor-widget elementor-widget-text-editor\" data-id=\"5cfdd62\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<div>Related Publications:<\/div><ul><li>Cascarina SM, Paul KR, Machihara S, Ross ED. Sequence features governing aggregation or degradation of prion-like proteins.\u00a0<em>PLOS Genet<\/em> 2018.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/30005071\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2018_PLOSGenet_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Paul KR, Molliex A, Cascarina S, Boncella AE, Taylor J, Ross ED. Effects of mutations on the aggregation propensity of the human prion-like protein hnRNPA2B1.\u00a0<em>Mol Cell Biol<\/em> 2017.\u00a0 <a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/28137911\/\" target=\"_blank\" rel=\"noopener\"><b>Pubmed<\/b><\/a><\/li><li>Paul KR, Hendrich CG, Waechter A, Harman MR, Ross ED. Generating new prions by targeted mutation or segment duplication.\u00a0<em>Proc Natl Acad Sci<\/em> 2015.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/26100899\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2015_PNAS_Paul.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Toombs JA, Petri M, Paul KR, Kan GY, Ben-Hur A, Ross ED. De novo design of synthetic prion domains.\u00a0<em>Proc Natl Acad Sci<\/em> 2012. <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/22474356\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2012_PNAS_Toombs.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Toombs JA, McCarty BR, Ross ED. Compositional determinants of prion formation in yeast.\u00a0<em>Mol Cell Biol<\/em> 2010.\u00a0 <a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/19884345\/\" target=\"_blank\" rel=\"noopener\"><b>Pubmed<\/b><\/a><\/li><\/ul>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-51b99ad elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"51b99ad\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-a2e293e\" data-id=\"a2e293e\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-58d3828 elementor-widget-divider--view-line elementor-widget elementor-widget-divider\" data-id=\"58d3828\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"divider.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"elementor-divider\">\n\t\t\t<span class=\"elementor-divider-separator\">\n\t\t\t\t\t\t<\/span>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-3c0e761 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"3c0e761\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-1e72695\" data-id=\"1e72695\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-c53507c elementor-widget elementor-widget-heading\" data-id=\"c53507c\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">Functional and Pathogenic Aggregation of Proteins with Prion-like Domains<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-d34ef92 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"d34ef92\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-b43f06e\" data-id=\"b43f06e\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-c7d0694 elementor-widget elementor-widget-image\" data-id=\"c7d0694\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img decoding=\"async\" width=\"1536\" height=\"452\" src=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/SG_droplet2-1536x452.jpg\" class=\"attachment-1536x1536 size-1536x1536 wp-image-325\" alt=\"\" srcset=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/SG_droplet2-1536x452.jpg 1536w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/SG_droplet2-300x88.jpg 300w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/SG_droplet2-1024x301.jpg 1024w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/SG_droplet2-768x226.jpg 768w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/SG_droplet2-2048x603.jpg 2048w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/SG_droplet2-676x199.jpg 676w\" sizes=\"(max-width: 1536px) 100vw, 1536px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-bad02a2 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"bad02a2\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-76d849e\" data-id=\"76d849e\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-5cc2835 elementor-widget elementor-widget-text-editor\" data-id=\"5cc2835\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>While protein aggregation is often pathological, a growing body of research suggests that reversible interactions mediating the transient assembly of certain proteins in response to cellular stress actually improves cell survival. Many of these proteins contain prion-like domains, which are themselves drivers or modifiers of beneficial assembly. However, as this is an exciting, relatively new area of research, little is known about the physical and molecular regulators of this process. Furthermore, mutations within prion-like domains involved in functional assembly can lead to the formation of pathological aggregates. Therefore, our lab is interested in understanding how the assembly of prion-like domains can be harnessed and regulated by cells to promote cellular adaptation to unfavorable conditions, and how mutations can disrupt this process.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-62522f3 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"62522f3\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-5572842\" data-id=\"5572842\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-453d2ee elementor-widget elementor-widget-text-editor\" data-id=\"453d2ee\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<div>Related Publications:<\/div><ul><li>Baer MH*, Cascarina SM*, Paul KR*, Ross ED. Rational tuning of the concentration-independent enrichment of prion-like domains in stress granules.\u00a0<em>J Mol Biol<\/em>\u00a02024.\u00a0\u00a0<strong><a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/39004265\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a><\/strong>\u00a0\u00a0<a href=\"https:\/\/authors.elsevier.com\/c\/1jU1P54HFVZOt\" target=\"_blank\" rel=\"noopener\"><strong>Access Link (temporary)<\/strong><\/a>\u00a0 *<em>Co-first authors<\/em><\/li><li>Boncella AE*, Shattuck JE*, Cascarina SM, Paul KR, Baer MH, Fomicheva A, Lamb AK, Ross ED. Composition-based prediction and rational manipulation of prion-like domain recruitment to stress granules. <em>Proc Nat Acad Sci<\/em>\u00a02020.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/32127480\/\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2020_PNAS_BoncellaAndShattuck.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b>\u00a0 <em>*Co-first authors<\/em><\/li><li>Cascarina SM, Ross ED. Natural and pathogenic protein sequence variation affecting prion-like domains within and across human proteomes.\u00a0<em>BMC Genom<\/em> 2020.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/31914925\/\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2020_BMCGenomics_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Shattuck JE, Paul KR, Cascarina SM, Ross ED. The prion-like protein kinase Sky1 is required for efficient stress granule disassembly.\u00a0<em>Nat Commun<\/em> 2019.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/31399582\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2019_NatCommun_Shattuck.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Kim\u00a0<em>et al.<\/em>. Mutations in prion-like domains in hnRNPA2B1 and hnRNPA1 cause multisystem proteinopathy and ALS.\u00a0<em>Nature<\/em> 2013.\u00a0 <a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/23455423\/\" target=\"_blank\" rel=\"noopener\"><b>Pubmed<\/b><\/a><\/li><\/ul>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-df4733c elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"df4733c\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-970f51b\" data-id=\"970f51b\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-a25495d elementor-widget-divider--view-line elementor-widget elementor-widget-divider\" data-id=\"a25495d\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"divider.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"elementor-divider\">\n\t\t\t<span class=\"elementor-divider-separator\">\n\t\t\t\t\t\t<\/span>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-df1165c elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"df1165c\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-774f9b7\" data-id=\"774f9b7\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-a793581 elementor-widget elementor-widget-heading\" data-id=\"a793581\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">Composition-driven Molecular Processes<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-863e84a elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"863e84a\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-50 elementor-top-column elementor-element elementor-element-63d9908\" data-id=\"63d9908\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-ce5e8b5 elementor-widget elementor-widget-text-editor\" data-id=\"ce5e8b5\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>Prion aggregation involves the transformation of native proteins into a new &#8220;infectious&#8221; conformation. Unlike most protein folding events, certain yeast prion proteins can misfold into their infectious form\u00a0<em>in a primary sequence-independent manner!<\/em>\u00a0That means that the prion domain sequences can be completely scrambled (while preserving the amino acid composition) and still retain the ability to form infectious aggregates. This suggests that some molecular processes are governed predominantly by\u00a0<em>amino acid composition<\/em>.<\/p><p>This counter-dogmatic principle led us to ask if a central focus on amino acid composition could illuminate additional cellular and molecular processes. Therefore, we have developed a novel bioinformatic approach to link amino acid composition to protein fates and functions on a proteome-wide scale. Using this approach, we are currently exploring relationships between amino acid composition and the fundamental aspects of a protein life cycle (synthesis, abundance, and degradation), as well as defining the compositional features associated with proteins involved in known composition-driven processes.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t<div class=\"elementor-column elementor-col-50 elementor-top-column elementor-element elementor-element-66a1d70\" data-id=\"66a1d70\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-8553cef elementor-widget elementor-widget-image\" data-id=\"8553cef\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img decoding=\"async\" width=\"676\" height=\"620\" src=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/LoCo-Graphical-Abstract4-01-1024x939.jpg\" class=\"attachment-large size-large wp-image-322\" alt=\"\" srcset=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/LoCo-Graphical-Abstract4-01-1024x939.jpg 1024w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/LoCo-Graphical-Abstract4-01-300x275.jpg 300w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/LoCo-Graphical-Abstract4-01-768x704.jpg 768w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/LoCo-Graphical-Abstract4-01-1536x1409.jpg 1536w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/LoCo-Graphical-Abstract4-01-2048x1878.jpg 2048w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/LoCo-Graphical-Abstract4-01-676x620.jpg 676w\" sizes=\"(max-width: 676px) 100vw, 676px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-f58301e elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"f58301e\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-003da92\" data-id=\"003da92\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-c1afd06 elementor-widget elementor-widget-text-editor\" data-id=\"c1afd06\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<div>Related Publications:<\/div><ul><li>Cascarina SM, Ross ED. Identification of low-complexity domains by compositional signatures reveals class-specific frequencies and functions across the domains of life.\u00a0<em>PLOS Comput Biol<\/em> 2024.\u00a0 <a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/38748749\/\" target=\"_blank\" rel=\"noopener\"><strong>Pubmed<\/strong><\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2024\/05\/2024_PLOS_Comput_Biol_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\"><strong>Download PDF<\/strong><\/a><\/li><li>Cascarina SM, Ross ED. The LCD-Composer webserver: high-specificity identification and functional analysis of low-complexity domains in proteins. <em>Bioinformatics<\/em> 2022.\u00a0\u00a0<strong><a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/36282522\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a><\/strong>\u00a0 <strong><a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2022\/10\/2022_Bioinformatics_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/strong><\/li><li>Cascarina SM, Ross ED. Expansion and functional analysis of the SR-related protein family across the domains of life.\u00a0<em>RNA<\/em> 2022. \u00a0<strong><a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/35863866\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a><\/strong>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2022\/10\/2022_RNA_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\"><strong>Download PDF<\/strong><\/a><\/li><li>Cascarina SM, King DC, Osborne Nishimura E, Ross ED. LCD-Composer: an intuitive, composition-centric method enabling the identification and detailed functional mapping of low-complexity domains.\u00a0<em>NAR Genom &amp; Bioinform<\/em> 2021.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/34056598\/\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2021_NARGAB_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Cascarina SM, Ross ED. A proposed role for the SARS-CoV-2 nucleocapsid protein in the formation and regulation of biomolecular condensates.\u00a0<em>FASEB J<\/em> 2020.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/32562316\/\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2020_FASEBJ_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Cascarina SM, Elder MR, Ross ED. Atypical structural tendencies among low-complexity domains in the Protein Data Bank proteome.\u00a0<em>PLOS Comput Biol<\/em> 2020.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/31986130\/\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2020_PLOSCompBiol_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Cascarina SM, Ross ED. Natural and pathogenic protein sequence variation affecting prion-like domains within and across human proteomes.\u00a0<em>BMC Genom<\/em> 2020.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/31914925\/\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2020_BMCGenomics_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Cascarina SM, Ross ED. Proteome-scale relationships between local amino acid composition and protein fates and functions.\u00a0<em>PLOS Comput Biol<\/em> 2018.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/30310993\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2018_PLOSCompBiol_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><\/ul>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-548d630 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"548d630\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-ee9f100\" data-id=\"ee9f100\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-be200e0 elementor-widget-divider--view-line elementor-widget elementor-widget-divider\" data-id=\"be200e0\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"divider.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"elementor-divider\">\n\t\t\t<span class=\"elementor-divider-separator\">\n\t\t\t\t\t\t<\/span>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-ef4fb14 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"ef4fb14\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-dc2fbec\" data-id=\"dc2fbec\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-a3af992 elementor-widget elementor-widget-heading\" data-id=\"a3af992\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">Aggregation and Protein Quality Control<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-5fbf13c elementor-section-content-top elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"5fbf13c\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-50 elementor-top-column elementor-element elementor-element-050ef57\" data-id=\"050ef57\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-00d26b4 elementor-widget elementor-widget-image\" data-id=\"00d26b4\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img loading=\"lazy\" decoding=\"async\" width=\"676\" height=\"469\" src=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/proteostasis_test-1024x711.jpg\" class=\"attachment-large size-large wp-image-324\" alt=\"\" srcset=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/proteostasis_test-1024x711.jpg 1024w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/proteostasis_test-300x208.jpg 300w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/proteostasis_test-768x533.jpg 768w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/proteostasis_test-676x469.jpg 676w, https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/proteostasis_test.jpg 1511w\" sizes=\"(max-width: 676px) 100vw, 676px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t<div class=\"elementor-column elementor-col-50 elementor-top-column elementor-element elementor-element-39bf4f4\" data-id=\"39bf4f4\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-96fee05 elementor-widget elementor-widget-text-editor\" data-id=\"96fee05\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>The ability to generate and maintain properly folded proteins is a skill required of every known life form. Accordingly, cells possess an arsenal of factors whose purpose is to regulate the synthesis, folding, and degradation of all cellular proteins, a process referred to as protein homeostasis, or &#8220;proteostasis&#8221;. Some proteins manage to aggregate in spite of these quality control systems, yet little is known about the inherent sequence features that make prion and prion-like proteins susceptible or resistant to regulation by the proteostasis machinery. Therefore, we have developed a genetic screening pipeline that allowed us to delineate many of the features of prion-like domains leading either to aggregation or accelerated degradation. We are now trying to understand\u00a0<em>why<\/em> these prion-like domains are sensitive or resistant to degradation, and which proteostasis factors are involved in regulating the stability and aggregation activity of prion-like proteins.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-1d92524 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"1d92524\" data-element_type=\"section\" data-e-type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-b71e22b\" data-id=\"b71e22b\" data-element_type=\"column\" data-e-type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-7d6447a elementor-widget elementor-widget-text-editor\" data-id=\"7d6447a\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<div>Related Publications:<\/div><ul><li>Cascarina SM, Kaplan JP, Elder MR, Brookbank L, Ross ED. Generalizable compositional features influencing the proteostatic fates of polar low-complexity domains.\u00a0<em>IJMS<\/em> 2021.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/34445649\/\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2021_IJMS_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><li>Cascarina SM, Ross ED. Aggregation and degradation scales for prion-like domains: sequence features and context weigh in.\u00a0<em>Curr Genet<\/em> 2019.\u00a0 <a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/30310993\/\" target=\"_blank\" rel=\"noopener\"><b>Pubmed<\/b><\/a><\/li><li>Cascarina SM, Paul KR, Machihara S, Ross ED. Sequence features governing aggregation or degradation of prion-like proteins.\u00a0<em>PLOS Genet<\/em> 2018.\u00a0 <b><a href=\"https:\/\/www.pubmed.ncbi.nlm.nih.gov\/30005071\/\" target=\"_blank\" rel=\"noopener\">Pubmed<\/a>\u00a0 <a href=\"https:\/\/rosslab.colostate.edu\/wp-content\/uploads\/2021\/12\/2018_PLOSGenet_Cascarina.pdf\" target=\"_blank\" rel=\"noopener\">Download PDF<\/a><\/b><\/li><\/ul>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<\/div>\n\t\t","protected":false},"excerpt":{"rendered":"<p>Research Interests Fundamental Features of Prion Proteins Our lab uses budding yeast to study the basic steps involved in the formation of infectious protein aggregates (&#8220;prions&#8221;). Specifically, we are interested [&hellip;]<\/p>\n","protected":false},"author":2,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"footnotes":""},"class_list":["post-23","page","type-page","status-publish","hentry","post-preview"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/rosslab.colostate.edu\/index.php?rest_route=\/wp\/v2\/pages\/23","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/rosslab.colostate.edu\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/rosslab.colostate.edu\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/rosslab.colostate.edu\/index.php?rest_route=\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/rosslab.colostate.edu\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=23"}],"version-history":[{"count":54,"href":"https:\/\/rosslab.colostate.edu\/index.php?rest_route=\/wp\/v2\/pages\/23\/revisions"}],"predecessor-version":[{"id":527,"href":"https:\/\/rosslab.colostate.edu\/index.php?rest_route=\/wp\/v2\/pages\/23\/revisions\/527"}],"wp:attachment":[{"href":"https:\/\/rosslab.colostate.edu\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=23"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}