am speaking later at Session F here #ICESASC2023 about #estuary #biomonitoring using 16S #metabarcoding and #MicrobialEcology. Tune in or drop by if you're interested

Taking #seagrass (Zostera noltii) and #SaltMarsh #flora samples for #microbial community #eDNA and ancient DNA analysis (prokaryotes, #fungi and plants) of #sediment, #rhizome and epibionts, Oka Estuary, Urdaibai Biosphere Reserve, Bizkaia, Basque Country

#MicrobialEcology #metabarcoding #BlueCarbon

ASM is now taking session proposals for the 2024 Microbe meeting in Atlanta, Georgia

#ASM #Microbiology #MicrobialEvolution #MicrobialEcology #Phage #Phages #Bacteria

https://asm.org/Events/ASM-Microbe/Session-Proposals?_zs=eKArl&_zl=bePd2

For Dylan Chivian, staying connected with the natural world goes hand in hand with his work as a microbial scientist and coding engineer with the Systems Biology Knowledgebase (#KBase). When he's not building software tools he's out seeking adventure.

Get to know this Microbial Explorer in our latest Behind the Breakthroughs story: https://biosciences.lbl.gov/2023/05/09/dylan-chivian-microbial-explorer/

Berkeley Lab

#microbiology #biotechnology #bioinformatics #computationalbiology #environmentalscience #microbialecology #STEMCareers.

A fantastic thorough study on viral ecology within built environments! #virology #MicrobialEcology

“Consistent with the differences in diversity and structure between bacterial communities in air and on surfaces, the airborne and surface-borne viromes in the present study were distinct. The use of advanced ventilation and filtration systems may explain the lower virome diversity in subway air than in air from venues using natural ventilation.”

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10169181/

I just released gcplyr v1.5.0 on github.

gcplyr is an #RStats package that makes it easy to wrangle and do model-free analyses of #microbial growth curve data

https://mikeblazanin.github.io/gcplyr/

v1.5.0 includes:
- fixes for critical bugs in derivative calculation
- improved handling of NA values, including several new functions
- new function for linear interpolation
- new args when calculating area under the curve

#microbiology #MicrobialEcology #MicrobialEvolution #ggplot2 #tidyverse #dplyr #data

This week week we have the pleasure and privilige to host a visit by two amazing friends and collaborators from the University of Greifswald, Mia Bengtsson and Katharina Kesy, who today presented their work on #MicrobialEcology and restoration of #seagrass meadows

I *should* be writing my dissertation...

Instead I just released gcplyr v1.3.0 on github

gcplyr is an #RStats package that makes it easy to wrangle and do model-free analyses of #microbial growth curve data

v1.3.0 includes:
- new methods to calculate lag time and doubling time
- improved warnings for common situations
- improved documentation

https://mikeblazanin.github.io/gcplyr/

#microbiology #MicrobialEcology #MicrobialEvolution #ggplot2 #tidyverse #dplyr #data

Blooms of #Cyanobacteria pose a significant threat to #freshwater systems including rivers driving both #eutrophication and its dire implications for freshwater species as oxygen availability plummets and also the additional threat posed by #cyanotoxins produced by some Cyanobacteria.

This new research in Scientific Reports takes a #metagenomics and Q-PCR approach to explore the composition of the Cyanobacterial populations and their cyanotoxin production gene in major rivers across the United States (in 2019) and identifies Microcystis as the key toxin producing genus across this study.

Find out more on:

https://www.nature.com/articles/s41598-023-29037-6

#microbiology #ecology #MicrobialEcology

Food webs are fascinating.

This recent research explores and identifies predatory #bacteria found widely in and feeding on other bacteria present within activated sludge systems in #wastewater treatment plants.

Find out more in the ISME Journal on:

https://www.nature.com/articles/s41396-023-01378-0

#microbiology #MicrobialEcology #water

Sensitive #marine #bacteria

- how heterotrophic Marinobacter can use #chemotaxis to facilitate carbon and nitrogen exchange with photoautotrophic Synechocococcus.

Learn more in Nature Microbiology on:

https://www.nature.com/articles/s41564-023-01327-9

#microbiology #ecology #MicrobialEcology

As we (humans) get to grips with how to scale up #hydrogen as an energy source (and for energy storage) and as part replacement for #fossilfuels, this new research (once again) shows that #microbes have beaten us to it and evolved their own solutions for energy - in this case using hydrogen power.

This new research in Nature Microbiology explores how hydrogen in seawater supports growth of multiple and diverse #bacterial species.

Fof those (like me) in #Melbourne , you may be interested that the research also includes study of this process within #PortPhillipBay sediments.

Learn more on:

https://www.nature.com/articles/s41564-023-01322-0

#microbiology #bacteria #ecology #MicrobialEcology

Given #COVID19 , I think many people are now aware of the movement of #viruses in the air...

This new research in Communications Earth and Environment explores the importance of air as a conduit for transport of #bacteria within air masses across the #Mediterranean. Whilst we've known of airborne bacteria for many many years, this research provides valuable insight into the potential role and importance of microbial transport via air for #ecology and #health.

Find out more on:

https://www.nature.com/articles/s43247-023-00679-8

#microbiology #MicrobialEcology

This week we are running the 7th edition of the #Metabarcoding in #MicrobialEcology course with @Passdan @brunofosso @AnnaSandionigi
& 35 students attending the course from all over the 🗺️

We hope we can help them with their cool #metabarcoding projects

#Bioinformatics #Rstats

Happy to announce that gcplyr is now available on CRAN!

gcplyr is a package that makes it easy to wrangle and do model-free analyses of bacterial growth curve data

You can install gcplyr in R with:
install.packages("gcplyr")

Learn more at https://mikeblazanin.github.io/gcplyr/index.html

#RStats #microbiology #MicrobialEcology #MicrobialEvolution #ggplot2 #tidyverse #dplyr #microbial #data

#Virus control

This exciting new research explores the influence of #virus #infection in changing the balance of organic matter degradation between #bacteria and #eukaryotes in #marine #carboncycling during #phytoplankton blooms.

Based on #mesocosm studies, this research demonstrates how #viruses infecting different #microorganisms change community dynamics and the release and potential fate of marine carbon from primary production.

Learn more in this new research in Nature Communications on:

https://www.nature.com/articles/s41467-023-36049-3

#microbiology #ecology #MicrobialEcology

The identification of the role of #Archaea in carrying out ammonia oxidation in #nitrification in both aquatic and soil #ecosystems was a game changer in our understanding of (microbial) #nitrogencycling

This new research reveals hitherto unknown complexity in the enzyme that catalyses #ammoniaoxidation in Archaea and the involvement of additional Amo protein subunits.

Learn more in the ISME Journal on:

https://www.nature.com/articles/s41396-023-01367-3

#microbiology #ecology #MicrobialEcology

#Microbe filter feeders

This recent research explores how mesh feeding #zooplankton are able to feed directly on #prokaryotic #microorganiisms and suggests #Prochlorococcus (#Cyanobacteria) may be able to evade #predation.

Find out more in Environmental Microbiology on:

https://ami-journals.onlinelibrary.wiley.com/doi/full/10.1111/1462-2920.16334

#microbiology #ecology #microbialecology #marinebiology

Imagine having your #ecology field site obliterated by a #volcanic erruption - well this fascinating research in mBio explores #microbial community succession on a short-lived (7 year) volcanic island in #Tonga. Find out more on:

https://journals.asm.org/doi/10.1128/mbio.03313-22

#microbiology #MicrobialEcology

This is brilliant.

Exploration of interspecies interactions at the single cell level between #marine #bacteria using a #microfluidics approach to study carbon #metabolism including cross-feeding.

New research in the ISME Journal on:

https://www.nature.com/articles/s41396-022-01312-w

#microbialecology #ecology #microbiology