<div dir="ltr"><div>Hello Dulce,</div><div><br></div><div>Unfortunately we can only host genomes (i.e., genome assembly and gene annotation) that have been previously submitted to the INSDC (ENA, NCBI or DDBJ). Version 1 is the only one available in any of these repositories. It is very tricky to map things after 5 rounds of modifications (v1 <--> v6) but that might be the only way you would be able to use Plant Reactome pathways. Unless the V6 assembly and annotation for <i>Marchantia polymorpha</i> is submitted to the INSDC (preferably the ENA), we would not be able to update it in Gramene. <br></div><div><br></div><div>If it helps, I noticed that gene names in the latest version 3.1 in Phytozome seem to correspond to those in v1 after replacing the Mapoly### prefix with MARPO_### but you would need to (BLAST) align them to confirm this. See for example:</div><div><br></div><div>
<a href="https://phytozome-next.jgi.doe.gov/report/transcript/Mpolymorpha_v3_1/Mapoly0001s0006.1">https://phytozome-next.jgi.doe.gov/report/transcript/Mpolymorpha_v3_1/Mapoly0001s0006.1</a><br>
and<br>
<a href="https://ensembl.gramene.org/Marchantia_polymorpha/Transcript/Domains?db=core;g=MARPO_0001s0006;r=KZ772673:61451-62686;t=PTQ49917">https://ensembl.gramene.org/Marchantia_polymorpha/Transcript/Domains?db=core;g=MARPO_0001s0006;r=KZ772673:61451-62686;t=PTQ49917</a></div><div><br></div><div>Regards,<br></div><div><br></div><div>Marcela<br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Tue, May 3, 2022 at 4:55 PM <a href="mailto:feedback@gramene.org">feedback@gramene.org</a> <<a href="mailto:feedback@gramene.org">feedback@gramene.org</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">URL : No referrer<br>
<br>
Subject : Marchantia genome update<br>
<br>
Name : Dulce Flores<br>
<br>
Email : <a href="mailto:floresmtzdulce@gmail.com" target="_blank">floresmtzdulce@gmail.com</a><br>
<br>
Organization: Universidad Veracruzana<br>
<br>
Comments : Hello, I am interested in performing an analysis with Marchantia polymorpha, I work with Marchantia.info and the most recent version is 6. But when I try to use plantreactome.gramene, the only version is 1 and I cannot perform my analysis. I would like to know if it is possible to update the Marchantia polymorpha genome version<br>
Best regards<br>
<br>
<a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__www.warelab.org_bugs_view.php-3Fid-3D6139&d=DwIBaQ&c=mkpgQs82XaCKIwNV8b32dmVOmERqJe4bBOtF0CetP9Y&r=_Zc33CcBZfVwbQ1K4e-3NTJkpUcuPGSVWXBMVfPABpI&m=vPzqHrL04DMltw9iKyoVDzfuT_QXQRF-LmgYieBSVxHOYmhWyPRs5ms_GnXoVnVe&s=g7zD6QStnfOY7IV9ZqV5jOYJWjFIKfBnJfWeT4chKKo&e=" rel="noreferrer" target="_blank">https://urldefense.proofpoint.com/v2/url?u=http-3A__www.warelab.org_bugs_view.php-3Fid-3D6139&d=DwIBaQ&c=mkpgQs82XaCKIwNV8b32dmVOmERqJe4bBOtF0CetP9Y&r=_Zc33CcBZfVwbQ1K4e-3NTJkpUcuPGSVWXBMVfPABpI&m=vPzqHrL04DMltw9iKyoVDzfuT_QXQRF-LmgYieBSVxHOYmhWyPRs5ms_GnXoVnVe&s=g7zD6QStnfOY7IV9ZqV5jOYJWjFIKfBnJfWeT4chKKo&e=</a> <br>
</blockquote></div><br clear="all"><br>-- <br><div dir="ltr" class="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1"><br>Marcela Karey Tello-Ruiz, PhD</font></span><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1"><br></font></span><div><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1">Computational Science Manager </font></span><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1"><span>and Education, Outreach & Training Lead</span></font></span></div><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1">Cold Spring Harbor Laboratory</font></span><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1"><span style="background-color:rgb(255,255,255)"><span><br></span></span></font></span><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"></span></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div>