Jesús Peña introduces his research on sexual reproduction in the zygomycete fungi in the lab through a new video as part of the UCR Microbiology Graduate Ambassador. Have a watch and learn more about the research Jesús is working on.

 

The end of summer meant goodbye to our excellent REU student Saisuki Putumbaka. Suki was here for two months and worked on fungal-bacteria interactions project as part of the UCR Research Experiences for Undergraduates organized through the Center for Plant Cell Biology. Under the guidance of Derreck  she tested ideas about the bacteria harbored by a broad range of zygomycete fungi from our draft genome sequencing projects. She also learned how to take pictures of some of these fungi and observing how they sped up the rotting process in fruit. Alas the best laid plans to compare microbiomes of these samples did not come to fruition but I think there were some lessons in there about how science works some of the time.

It was really a joy having her in the group and we are excited about her finishing her senior year at The College of New Jersey and applying to graduate school next. Many of the lab members helped to make sure Suki was properly introduced her to Southern California delights from Joshua Tree National Park, the Pacific Ocean, and In-n-Out Burger.

I am delighted to announce that Yan Wang a current postdoc in our group, will be a starting his next position as an Assistant Professor in the Department of Biology at the University of Toronto-Scarborough. Yan has spent the last two years in the lab working on Zygolife and Neocallomastigomycota fungi projects. We are super proud of all he has accomplished in his training and research. This includes multiple publications from his thesis work and several papers submitted from his current projects. The lab has greatly benefited from his phylogenetic and insect-fungi expertise. Luckily we still have ~6 more month together to continue projects and help him prepare for his next step in his career.

Several publications were accepted and published in last few months and want to highlight the hard work from lab members and collaborators.

Jinfeng lead article published on the localized burst of Rice Transposable Elements Ping and Pong in only a subset of the domesticated lineages and clues to what changed to drive their increased activity.

A fun collaboration lead by Adam Bewick and Bob Schmitz we called #MycoMeth explored diversity of Cytosine DNA Methylation in Fungi looking at the 5-methylcytosine (5mC) marks and evolution of the fungal 5mC methyltransferases .

Two Zygolife project papers. One on genome evolution and phylogenic position of Endogone – a truffle forming Mucoromycotina fungus. This was quite challenging but interesting project to tackle, lead by Ying Chang in the Spatafora Lab. Dr Chang took a metagenomics approach to capture these unculturable fungi followed by bioinformatic analyses to isolate the fungal and Mucoromycotina component of the dataset.

A second paper lead by William Davis from Tim James lab on the genomes and phylogeny of Zoopagomycotina fungi which include nematophagous and mycoparasites.

Jason participated in a Marine Fungi workshop on the unexplored diversity in the marine environments and co-authored this perspective on the opportunities and challenges in characterizing and studying these fungi.

Former postdoc Ousmane Cissé developed FGMP, a tool for assessing completeness of fungal genomes which uses both conserved protein coding markers that can include multicopy gene families and conserved non-coding DNA regions. This was published this month as well, congrats Ousmane!

Congrats Derreck! He was selected by the California Council on Science and Technology (CCST) to give a presentation and represent Dept of Microbiology and Plant Pathology and UCR at the California Science Translators Showcase. He will be giving a talk about his research at the California State Capitol to legislators/state senators, agency managers, and senior policy leaders. He was chosen out of a pool of California PhD students, post-docs, and career scientists from all different STEM fields and universities to talk about plant pathology/fungi.

Nat visited New Mexico State University several times this summer to complete work at the Jornada LTER site working with Nicole Pietrasiak (@drylandalgae) on the micro- and myco-biomes of biological crusts. Visits to Anza Borrego and Boyd Deep Canyon for Tania to scope out UCNRS research sites to explore desert rock varnish and rock or crust associated black fungi. Julia continued to develop her Joshua Tree research sites for lichen studies and has collected and sequenced new accessions for a reference library of lichens from Joshua Tree NP.

Congrats to Jesús (IG: variety_hour) who passed his qualifying exam has continued to explore zygomycete diversity focusing on sexual reproduction.  Derreck has been working on bacteria-fungal interactions via volatiles and new work with N. crassa sensing of these. Yan has submitted a manuscript on his postdoc work on phylogenomics and dating the emergence of the the anaerobic gut fungi. Jinfeng has submitted and is revising work on characterizing the transposition and burst of the Ping, Pong, and mPing transposable elements across 3000 Rice accessions. Sawyer generated and analyzed whole genome sequence from strains of Rhizopus stolonifer in his population genomics project which he presented at the IMC11 conference.

New publications including population genomic diversity of Candida lusitaniae, Entomophthorales proteases, space fungi!, and fungal & bacteria communities in Antarctic rocks came out in the last few months.

Hopefully another update before the end of 2018 but check out pictures and tweets for shorter updates.

Last week we hosted several visitors from our ZyGoLife collaborative team in sunny California. I wrote a few notes on Nicole Reynolds and Javier Tabima’s visit for the zygolife site on their extended research stay. We also got to host the Zygofornia Zygolife team meeting.  Here are some pictures I took from the desert and mountain visits.