| Strain, strain background (Helicobacter pylori) |
G27 |
Baltrus et al., 2009
|
|
|
| Strain, strain background (Helicobacter pylori) |
J99 |
Alm et al., 1999
|
|
|
| Strain, strain background (Helicobacter pylori) |
Tx30a |
ATCC |
51932 |
|
| Strain, strain background (Helicobacter pylori) |
omp27::cat-sacB in NSH57 |
Yang et al., 2019
|
|
H. pylori strain G27 with HopQ deletion |
| Strain, strain background (Escherichia coli) |
Rosetta (DE3) pLyS |
Lab collection |
|
E. coli strain for outer membrane IPTG inducible expression of Neisserial Opa proteins |
| Strain, strain background (Escherichia coli) |
DH5α |
Lab collection |
|
E. coli strain for maintenance and propagation of pET-28a plasmid constructs |
| Strain, strain background (Escherichia coli) |
One Shot Top10 Chemically Competent cells |
Thermo Fisher Scientific |
C404010 |
E. coli strain for cloning, maintenance and propagation of pcDNA3 GFP LIC plasmid constructs |
| Cell line (Homo sapiens) |
HEK293T |
ATCC |
RRID:CVCL_0063; CRL-3216 |
|
| Recombinant DNA reagent |
pET-28a (plasmid) |
Genscript |
|
Plasmid backbone for expression of Neisserial Opa proteins |
| Recombinant DNA reagent |
pcDNA3 GFP LIC (plasmid) |
Addgene |
RRID:Addgene_30127; #30,127 |
Plasmid backbone for expression of primate CEACAM1 N-domain constructs in HEK293T cells |
| Antibody |
Mouse monoclonal antibody mixture;Mouse α-GFP clones 7.1 and 13.1 |
Sigma-Aldrich |
RRID:AB_390913; 11814460001 |
1:103 dilution; Primary antibody for visualization of GFP labeled CEACAM1 N-domain constructs |
| Antibody |
Goat polyclonal antibody; goat α-mouse conjugated to horseradish peroxidase |
Jackson ImmunoResearch |
RRID:AB_10015289; 115-035-003 |
1:104 dilution; Secondary antibody for visualization of GFP labeled CEACAM1 N-domain constructs |
| Other |
Advansta WesternBright ECL HRP Substrate |
Thomas Scientific |
K-12049-D50 |
Reagent to visualize proteins bound by secondary antibody in a western blot |
| Software, algorithm |
PAML4.9h |
http://abacus.gene.ucl.ac.uk/software/paml.html
Yang, 2007
|
RRID:SCR_014932
|
|
| Software, algorithm |
FUBAR |
https://www.datamonkey.org
Murrell et al., 2013
|
RRID:SCR_010278
|
|
| Software, algorithm |
MEME |
classic.datamonkey.org
Murrell et al., 2012
|
RRID:SCR_010278
|
|
| Software, algorithm |
GARD |
classic.datamonkey.org
Kosakovsky Pond et al., 2006
|
RRID:SCR_010278
|
|
| Sequence-based reagent |
bon_gCCM1N_F3 |
This paper |
PCR primer |
Primer for initial amplification of bonobo CEACAM1 N-domain from genomic DNA [TTCACAGAGTGCGTGTACCC] |
| Sequence-based reagent |
bon_gCCM1N_R2 |
This paper |
PCR primer |
Primer for initial amplification of bonobo CEACAM1 N-domain from genomic DNA [CCTCCCAGGTTCAAGCGATT] |
| Sequence-based reagent |
bon_gCCM1N_F1 |
This paper |
PCR primer |
Primer for secondary amplification of bonobo CEACAM1 N-domain from genomic DNA [CAGTGGAGGGGTGAAGACAC] |
| Sequence-based reagent |
bon_gCCM1N_R1 |
This paper |
PCR primer |
Primer for secondary amplification of bonobo CEACAM1 N-domain from genomic DNA [CATGTTGGTCAGGCTGGTCT] |
| Sequence-based reagent |
bon_gCCM1N_seqF1 |
This paper |
Sequencing primer |
Primer to sequence bonobo CEACAM1 N-domain amplified from genomic DNA [CCCGTTTTTCCACCCTAATGC] |
| Sequence-based reagent |
bon_gCCM1N_seqF4 |
This paper |
Sequencing primer |
Primer to sequence bonobo CEACAM1 N-domain amplified from genomic DNA [GGGGAAAGAGTGGATGGCAA] |
| Sequence-based reagent |
bon_gCCM1N_seqR2 |
This paper |
Sequencing primer |
Primer to sequence bonobo CEACAM1 N-domain amplified from genomic DNA [TGGGGGAATCACTCACGGTA] |
| Biological sample (pan paniscus) |
AG05253 |
Nels Elde |
RRID:CVCL_1G37
|
Bonobo genomic DNA sample |
| Software, algorithm |
R v4.1.2 |
https://cran.r-project.org/
|
RRID:SCR_003005
|
|
| Software, algorithm |
Python 3.7 |
Python Software Foundation https://www.python.org/
|
RRID:SCR_008394
|
|
| Software, algorithm |
JupyterNotebook 5.7.4 |
Project Jupyter https://jupyter.org/
|
RRID:SCR_018315
|
|
| Software, algorithm |
AnacondaNavigator 1.9.12 |
Anaconda, Inc https://www.anaconda.com/
|
|
|
