DOI: 10.5281/zenodo.556792
title: In Silico Identified Signal Peptides Of Chlamydomonas Reinhardtii

description: <strong>Overview</strong>

<em>Chlamydomonas reinhardtii </em>theoretical signal peptides identified by<em> </em>SignalP 4.0 in a protein data set described below:


	Protein data set came from "The Genome Portal of the Department of Energy Joint Genome Institute" (http://genome.jgi.doe.gov/)
	Protein sequences were evaluated in SignalP 4.0 Server (http://www.cbs.dtu.dk/services/SignalP/)


 

<strong>File used</strong>

Chlre4_best_proteins.fasta.gz -&gt; Protein dataset version used for analysis

 

<strong>Workflow</strong> 

                                          ______Chlre4_best_proteins.fasta.gz_______

                                          |                                                                        |

     Chlre4_best_proteins_fasta_protein_woSP.fasta       Chlre4_best_proteins_signalPeptide.fasta

                                                                                                             |

                                                                      ___Chlre4_best_proteins_signalPeptide_unique.fasta___

                                                                      |                                                                                  |

                                      Chlre4_best_proteins_signalPeptide_unique.aln               Signal Peptide Anotation from aligned.xlsx

 

<strong>Info</strong>

Chlre4_best_proteins_fasta_protein_woSP.fasta   -&gt; Mature protein sequences from proteins identified without signal peptide

Chlre4_best_proteins_signalPeptide.fasta            -&gt; Identified signal peptide

Chlre4_best_proteins_signalPeptide_unique.fasta -&gt; Unique identified signal peptide

Chlre4_best_proteins_signalPeptide_unique.aln    -&gt; Align signal peptides (UGENE)

Signal Peptide Annotation from aligned.xlsx          -&gt; Signal peptide list, highlighted in orange theoretical tested.

 

<strong>Citations</strong>

For use of signal peptide dataset, please cite:

Molino JVD, de Carvalho JCM, Mayfield SP (2018) Comparison of secretory signal peptides for heterologous protein expression in microalgae: Expanding the secretion portfolio for Chlamydomonas reinhardtii. PLoS ONE 13(2): e0192433. https://doi.org/10.1371/journal. pone.0192433

and 

<strong>SignalP 4.0: discriminating signal peptides from transmembrane regions</strong><br>
Thomas Nordahl Petersen, Søren Brunak, Gunnar von Heijne & Henrik Nielsen<br>
<em>Nature Methods</em>, <strong>8</strong>:785-786, <strong>2011</strong><br>
<br>
doi: 10.1038/nmeth.1701<br>
PMID: 21959131<br>
Supplementary materials: nmeth.1701-S1.pd

and 

<strong>The genome portal of the Department of Energy Joint Genome Institute: 2014 updates</strong>

H. Nordberg, M. Cantor, S. Dusheyko, S. Hua, A. Poliakov, I. Shabalov, T. Smirnova, I. V. Grigoriev, I. Dubchak, ,

Nucleic Acids Res. 42, 26–31. <strong>2014</strong> 

doi:10.1093/nar/gkt1069.
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