Erin Chille, M.S. 🧬🪸🧪
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erinchille.bsky.social
Erin Chille, M.S. 🧬🪸🧪
@erinchille.bsky.social
Ph.D. Candidate Bhattacharya Lab @RutgersEENR; M.S. #PutnamLab @uricels; @ICRSreefstudent
#omics, #ecophysiology, and #Coral #Reef #Resilience
Pinned
🚨 Excited to share my first ever review article, now out in BioEssays! 🚨

We explore how human point-of-care diagnostic tests can be adapted to monitor coral health! 🧬🌊

Check it out ➡️ doi.org/10.1002/bies...

#CoralReefs #Biotech #Conservation #MarineGenomics
Coral Restoration in the Omics Era: Development of Point‐of‐Care Tools for Monitoring Disease, Reproduction, and Thermal Stress
Shown are different multi-omics approaches that are used to identify potential biomarkers of coral health and disease. The integration of these data streams, using cutting-edge molecular diagnostic t...
doi.org
Reposted by Erin Chille, M.S. 🧬🪸🧪
Trump: "we found an answer to autism."

Reality: Nope!

We can't let the fearmongering, stigmatizing, guilt-placing lies win. 💪

‘No relationship’: Scientists push back on Trump’s reported claim linking paracetamol to autism www.euronews.com/health/2025/...

#ScienceMatters!
Scientists rebuke Trump’s reported claim linking paracetamol to autism
The global scientific community has pushed back on the claim that paracetamol during pregnancy is linked to autism, saying there is no relationship between the two.
www.euronews.com
September 22, 2025 at 1:37 PM
Today’s #DailyCoralRead: Clay et al. show that modern Caribbean corals descend from fast-growing, stress-sensitive ancestors. With warming seas, communities may shift toward Eocene-like corals –slower-growing, longer-lived, and more stress-tolerant. 🌊🌡️
doi.org/10.1017/pab....
September 8, 2025 at 10:17 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
Due to the current funding climate, I’m crowdfunding the last of my PhD project, and 𝐈 𝐜𝐨𝐮𝐥𝐝 𝐫𝐞𝐚𝐥𝐥𝐲 𝐮𝐬𝐞 𝐲𝐨𝐮𝐫 𝐡𝐞𝐥𝐩! 𝐌𝐲 𝐜𝐚𝐦𝐩𝐚𝐢𝐠𝐧 𝐞𝐧𝐝𝐬 𝐨𝐧 𝐎𝐜𝐭𝐨𝐛𝐞𝐫 𝟐𝟎𝐭𝐡, when I need to reach my $16k funding goal. I immensely appreciate your support!

𝐏𝐥𝐞𝐚𝐬𝐞 𝐬𝐡𝐚𝐫𝐞 𝐭𝐨 𝐝𝐨𝐧𝐚𝐭𝐞 𝐚𝐧𝐝 𝐥𝐞𝐚𝐫𝐧 𝐦𝐨𝐫𝐞: experiment.com/projects/rec...
Reconstructing Historical Oyster Filtration in the Guana River Marsh Aquatic Preserve
The Guana River Estuary in northeast Florida is impaired due to excess nutrients, which can fuel eutrophic algal blooms. Oysters naturally filter estuaries, but modern data is limited. This project ai...
experiment.com
September 5, 2025 at 1:42 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
Inadvertently, this is an incredible illustration of how

(a) the infrastructure required for fossil fuel extraction is bonkers and

(b) how we don't consider our oil and gas to be 'destroying nature' like wind turbines simply bc it's undersea
September 4, 2025 at 9:46 AM
Reposted by Erin Chille, M.S. 🧬🪸🧪
Your periodic reminder that mRNA vaccines are a scientific and public health game-changer. Those that have been approved have passed stringent efficacy and safety checks. They protect you and your child against potentially fatal diseases. You may, however, get a sore arm.
September 3, 2025 at 10:55 AM
🌊 Today's #DailyCoralRead shows coral outplanting can boost reef accretion & structural complexity - depending on the species! 🪸

This is great news for #biodiversity 🐠🦀 since complex reefs support fish & invertebrates.

#coralreefs #coralconservation
Coral restoration can drive rapid increases in reef accretion potential
Scientific Reports - Coral restoration can drive rapid increases in reef accretion potential
doi.org
September 3, 2025 at 5:00 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
Our collaborative study shows that hatchery domestication in Delta smelt elevates thermal tolerance but reduces plasticity, with transcriptome and methylome shifts influencing adaptation. Read the preprint here: www.biorxiv.org/content/10.1...
Highly and lowly domesticated endangered fish from a conservation hatchery diverge in their thermal physiology, transcriptome, and methylome
Conservation hatcheries aim to produce fish for supplementation of wild populations, but hatchery environments may drive phenotypic divergence from wild fish. These diverged traits may have reduced fi...
www.biorxiv.org
August 21, 2025 at 6:14 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
Delighted to share the peer-reviewed version of our study led by @tomlewin.bsky.social now out in Genome Biology @bmc.springernature.com! We analyzed 64 chromosome-level genomes across 15 animal phyla and found that extensive genome rearrangements are the norm in bilaterians.
doi.org/10.1186/s130...
Conservation of bilaterian genome structure is the exception, not the rule - Genome Biology
Species from diverse animal lineages have conserved groups of orthologous genes together on the same chromosome for over half a billion years since the last common ancestor of bilaterians. Although no...
doi.org
August 18, 2025 at 9:39 AM
Reposted by Erin Chille, M.S. 🧬🪸🧪
For a project, we needed a tool that will batch download phylogeographic DNA samples (like mtDNA and nucDNA) for lots of species, which have just been sitting on NCBI since the PCR and Sanger-sequencing era (ca. 2003-2015) and can still be hella useful, so I wrote one. It aligns the sequences, too 👍
GitHub - marctollis/macrogenetics: Fetching and alignment of population-level sampling for DNA genetic markers from NCBI
Fetching and alignment of population-level sampling for DNA genetic markers from NCBI - marctollis/macrogenetics
github.com
August 12, 2025 at 11:46 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
‘Sex reversal’ is surprisingly common in birds, new study suggests | Science | AAAS 🧪
‘Sex reversal’ is surprisingly common in birds, new study suggests
Survey of five Australian avians finds numerous discordant individuals, including a genetically male bird that had laid an egg
www.science.org
August 13, 2025 at 7:43 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
Please repost and amplify !

We are hiring a faculty position in Evolutionary Genetics in the Biology Department at U of South Carolina!

Check us out and come be our colleague!
sc.edu/study/colleg...

Deadline for applications is Oct 1

#AcademicJobs #EvoBio
Assistant Professor position in Evolutionary Genetics - Department of Biological Sciences | University of South Carolina
sc.edu
August 12, 2025 at 5:29 PM
Thrilled to have our work featured by the Rutgers Office of Public Outreach and Communication! 🧪🪸 http://tiny.cc/ri3r001 #marinegenomics #coralreefs #conservation
August 12, 2025 at 7:48 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
1. "'Trusting the experts is not a feature of either a science or democracy," Kennedy said."

It's literally a vital feature of both science and of representative democracy.

I've written a fair bit about trust in expertise as a vital mechanism in the collective epistemology of science.
RFK Jr. in interview with Scripps News: ‘Trusting the experts is not science’
HHS Secretary RFK Jr. sat down with Scripps News for a wide-ranging interview, discussing mRNA vaccine funding policy changes and a recent shooting at the Centers for Disease Control and Prevention.
www.scrippsnews.com
August 12, 2025 at 4:48 AM
Reposted by Erin Chille, M.S. 🧬🪸🧪
Small update: NSF source confirms that new funding opportunities at the agency are currently frozen, which is what the EO dictates (until a new review policy is implemented). Source is hopeful the freeze will be lifted in the coming days though.
There are a lot of details in yesterday's sweeping executive order, but the bottom line is that it gives political appointees immense power over scientific grants, which have until now been stewarded by career civil servants and experts.

My reporting:
www.nature.com/articles/d41...
Trump order gives political appointees vast powers over research grants
Researchers are alarmed that the move might upend a long-standing tradition of peer-review for grants.
www.nature.com
August 12, 2025 at 3:33 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
🪸🔥 New Preprint Alert! 🔥🪸

Our latest study dives into the proteomic and metabolomic responses of three corals under short-term thermal stress.💥 We uncover species-specific survival strategies!

Take a read at: www.biorxiv.org/content/10.1...
#CoralReefs #Conservation #MarineGenomics #Proteomics
Metaproteome analysis of short-term thermal stress in three sympatric coral species reveals divergent host responses.
The accelerating loss of coral reefs worldwide due to anthropogenic climate change has led to a myriad of studies aimed at understanding the basis of coral resilience to support reef conservation. Her...
www.biorxiv.org
August 9, 2025 at 2:27 PM
Today's #DailyCoralRead by Rassmussen et al. shows us we can’t always trust our eyes 🙈

They revise the Acropora hyacinthus complex, revealing 5 new species once all thought to be A. hyacinthus! 🧪🪸

www.publish.csiro.au...

#coralreefs #marinegenomics
The tables have turned: taxonomy, systematics and biogeography of the Acropora hyacinthus (Scleractinia: Acroporidae) complex
Genomic data have revealed that traditional coral taxonomy based on skeletal morphology does not accurately reflect the true diversity of, or systematic relationships within, the order Scleractinia. Here, we apply an integrated taxonomic approach combining molecular analysis and morphological comparison of type material with specimens collected from across the Indo-Pacific to revise the taxonomy of a clade within the species-rich and ecologically dominant reef coral genus Acropora, which includes the species Acropora hyacinthus (Dana, 1846) and related species (termed the ‘hyacinthus species complex’). Using a collection of specimens comprising preserved tissues, field images and skeletal vouchers collected from 22 regions spanning the Indian and Pacific Oceans, we generated a phylogenomic reconstruction using targeted capture of ultraconserved elements (UCEs) and exons, combined with examination of morphological characters, to generate primary species hypotheses (PSHs) for the clade. We then tested PSHs by calling Single Nucleotide Polymorphism (SNPs) from the genomic dataset to provide additional lines of evidence to support the delineation of species within the clade and revise the taxonomy of the group. Our integrated approach recovered 16 lineages sufficiently delineated to be designated as distinct species. Based on comparison of our specimens to type material and geographical distributions, we remove nine species from synonymy: A. turbinata (Verrrill, 1864), A. surculosa (Dana, 1846), A. patella (Studer, 1878), A. flabelliformis (Milne-Edwards, 1860), A. conferta (Quelch, 1886), A pectinata (Brook, 1892), A. recumbens (Brook, 1892), A. sinensis (Brook, 1893) and A. bifurcata Nemenzo, 1971. We also describe five new species: A. harriottae sp. nov. from south-eastern Australia, A. tersa sp. nov. from eastern Australia and the Western Pacific, A. nyinggulu sp. nov. from the eastern Indian Ocean, Indo-Australian Archipelago and southern Japan, A. uogi sp. nov. from the western Pacific and A. kalindae sp. nov. from north-eastern Australia. Our data reveal that the species richness within this clade of Acropora is far greater than currently assumed due to both overlooked provincialism across the Indo-Pacific as well as lumping of distinct sympatric species based on superficial morphological similarity. Given the key ecological role tabular Acropora play on Indo-Pacific reefs our findings have significant implications for reef conservation and management, for example, A. harriottae sp. nov. is restricted to a small geographical region of south-eastern Australia and is therefore at comparatively high risk of extinction. ZooBank: urn:lsid:zoobank.org:pub:6C42546C-9253-4639-9FF4-D8D80808D78C
www.publish.csiro.au
August 11, 2025 at 4:40 PM
So excited to see this come out! Thank you to Rutgers Office of Public Outreach and Communication for featuring our work 🧪🪸

https://rb.gy/yxkzla

#marinegenomics #coralreefs #conservation
August 8, 2025 at 3:06 PM
🪸 Today’s #DailyCoralRead introduces HERS—Host Evaluation of Reliance on Symbionts—a new metric for quantifying host dependence on symbiont autotrophy using stable isotope ellipse overlap in C & N space. Cool new tool for holobiont nutritional ecology!

http://tiny.cc/70hq001
July 29, 2025 at 11:59 PM
Reposted by Erin Chille, M.S. 🧬🪸🧪
Proactive assisted gene flow for Caribbean corals in an era of rapid coral reef decline | Science www.science.org/doi/10.1126/...
Proactive assisted gene flow for Caribbean corals in an era of rapid coral reef decline
Regulatory action could facilitate cross-border efforts to retain ecosystem function
www.science.org
July 25, 2025 at 5:39 AM
Today’s #DailyCoralRead 📖🪸

🧬 Two new telomere-to-telomere genome assemblies for Acropora digitifera and A. tenuis! 🧬

The study reveals highly disordered genomic regions with potentially neofunctionalized genes from lineage-specific expansions. 🧪

🔗 http://tiny.cc/z61q001
Nearly T2T, phased genome assemblies of corals reveal haplotype diversity and the evolutionary process of gene expansion
Abstract. Gene family expansion illustrates a critical aspect of evolutionary adaptation. However, the mechanisms by which gene family expansions emerge an
tiny.cc
July 23, 2025 at 11:23 PM
📖 #DailyCoralRead: 🪸
Fossil records of Porites corals show warmer temps boosted skeleton growth, but seasonality at higher latitudes limited accretion

Could seasonality limit temperate regions as climate refugia for tropical #coralreefs?? 🧪

http://tiny.cc/rz0q001
Mid-Miocene warmth pushed fossil coral calcification to physiological limits in high-latitude reefs
Communications Earth & Environment - Large seasonal temperature variability exacerbated the negative effects of reduced carbonate saturation on coral calcification during the mid-Miocene,...
tiny.cc
July 22, 2025 at 4:03 PM
Okay, I can breathe again 😮‍💨
🧪 BREAKING (good news): Senate subcommittee says NO! to Trump's proposed slashes to NASA & NSF funding.

Today, the subcommittee said to keep NASA + NSF funding at $33.9 billion, the same as in FY24.

See 7:15 below. Full Senate appropriations committee meets tomorrow about it.

🧵 1/3
Subcommittee Markup of the Commerce, Justice, Science, and Related Agencies Appropriations Act | United States Senate Committee on Appropriations
United States Senate Committee on Appropriations
www.appropriations.senate.gov
July 10, 2025 at 2:29 AM
🐠 🧪 Today’s #DailyCoralRead is a preprint recently released by Fischer et al. who discovered big differences in gene coexpression network topology between two recently diverged guppy lineages!

🔗 www.biorxiv.org/cont...

A thread 🧵👇🏻
Flexibility in Gene Coexpression at Developmental and Evolutionary Timescales
The explosion of next-generation sequencing technologies has allowed researchers to move from studying single genes to thousands of genes, and thereby to also consider the relationships within gene networks. Like others, we are interested in understanding how developmental and evolutionary forces shape the expression of individual genes, as well as the interactions among genes. In pursuing these questions, we confronted the central challenge that standard approaches fail to control the Type I error and/or have low power in the presence of high dimensionality (i.e., large number of genes) and small sample size, as in many gene expression studies. To overcome these challenges, we used random projection tests and correlation network comparisons to characterize differences in network connectivity and density. We detail central challenges, discuss sample size guidelines, and provide rigorous statistical approaches for exploring coexpression differences with small sample sizes. We apply these approaches in a species known for rapid adaptation – the Trinidadian guppy ( Poecilia reticulata ). Our findings provide evidence for coexpression network differences at developmental and evolutionary timescales and suggest that flexibility in gene coexpression relationships could promote evolvability. ### Competing Interest Statement The authors have declared no competing interest. National Science Foundation, DDIG-1311680, RCN IOS-1256839, IOS-1354755, IOS 1922701 US Department of Energy, DE-SC0018344 National Institutes of Health, https://ror.org/01cwqze88, NIH R01GM144961
www.biorxiv.org
July 9, 2025 at 11:23 PM
🪸 Today's #DailyCoralRead is actually a study on European Poplar! Learning from other systems can help progress #CoralReefScience! 🧪🌳

doi.org/10.1371/jour...

Read more for my take 👇🏻
July 8, 2025 at 10:29 PM