Journal: Molecular Cell

Article Title: Chromatin Fiber Invasion and Nucleosome Displacement by the Rap1 Transcription Factor

doi: 10.1016/j.molcel.2019.10.025

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Article Snippet: EcoRV-HF , New England Biolabs , Cat#R3195.

Techniques: Recombinant, Purification, Sample Prep, Software

Journal: Cell host & microbe

Article Title: Viral satellites exploit phage proteins to escape degradation of the bacterial host chromosome

doi: 10.1016/j.chom.2019.09.006

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: ​ REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-FLAG polyclonal antibody Sigma Cat# SAB4301135 RRID# AB_2811010 Goat anti-Rabbit IgG antibody, peroxidase conjugated Sigma Cat# AP132P RRID# AB_90264 Bacterial and Virus Strains Bacterial Strains, see Table S2 This paper N/A Phage Strains, see Table S3 This paper N/A Chemicals, Peptides, and Recombinant Proteins iQ SYBR Green Supermix Bio-Rad Cat# 1708880 CSPD™ Substrate (0.25 mM Ready-To-Use) Southern AP Substrate ThermoScientific Cat# T2141 Clarity Western ECL Substrate Bio-Rad Cat# 1705060 GelGreen Biotium Cat# 41005 GelRed Biotium Cat# 41003 BsaI New England Biolabs Cat# R0535S BseRI New England Biolabs Cat# R0581S T4 Ligase New England Biolabs Cat# M0202S EcoRV-HF New England Biolabs Cat# R3195S SalI-HF New England Biolabs Cat# R3138S Critical Commercial Assays DNeasy Blood & Tissue Kit Qiagen Cat# 69506 Nano-Glo Luciferase Assay System Promega Cat# N1110 DIG-High Prime DNA Labeling and Detection Started Kit I Sigma Cat# 11745832910 TGX Stain-Free FastCast Acrylamide Kit Bio-Rad Cat# 1610183 Deposited Data ICP1 _2017_F_Mathbaria This paper Deposited at GenBank: accession number MN419153 Escape phages This paper Deposited in the Sequence Read Archive (SRA) under BioProject ID PRJNA563933 Oligonucleotides Primers used in this study, see Table S4 This paper N/A Recombinant DNA Plasmids used in this study, see Table S5 This paper N/A Software and Algorithms SPAdes V3.11.1 ( Bankevich et al. 2012 ) http://cab.spbu.ru/software/spades/ Breseq v0.33.0 ( Deatherage & Barrick 2014 ) https://github.com/barricklab/breseq/releases/tag/v0.33.0 MUSCLE v3.8.31 ( Edgar 2004 ) https://www.drive5.com/muscle/ Clustal X v2.0 ( Larkin et al. 2007 ) http://www.clustal.org/clustal2/ Praline ( Bawono & Heringa 2014 ) http://www.ibi.vu.nl/programs/pralinewww/ BLASTP N/A https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=Proteins Prism GraphPad N/A https://www.graphpad.com/scientific-software/prism/ CLC Main Workbench 7 Qiagen https://www.qiagenbioinformatics.com/products/clc-main-workbench/ ImageJ NIH https://imagej.nih.gov/ij/ PhyML v20120412 ( Guindon et al. 2005 ) https://github.com/stephaneguindon/phyml Other Vecteezy N/A https://www.vecteezy.com/ Open in a separate window KEY RESOURCES TABLE Phage satellites exploit helicases of a V. cholerae lytic phage to selfishly replicate Phylogenetically distinct helicases from patient stool samples are sensitive to hijacking Mobilization of phage satellites is critical to avoid phage takeover of bacterial host

Techniques: Recombinant, SYBR Green Assay, Western Blot, Luciferase, DNA Labeling, Staining, Sequencing, Software