Uncovering abalone's genetic armour against heat stress

Climate change is no longer a distant threat—it is a present reality. For marine organisms such as abalone (Haliotis), survival hinges on resilience. Driven to connect the dots across RNA-seq studies, this research bridges existing findings to reveal a unified understanding of heat stress response.
Uncovering abalone's genetic armour against heat stress
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BioMed Central
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Synthesis of transcriptomic studies reveals a core response to heat stress in abalone (genus Haliotis) - BMC Genomics

Background As climate change causes marine heat waves to become more intense and frequent, marine species increasingly suffer from heat stress. This stress can result in reduced growth, disrupted breeding cycles, vulnerability to diseases and pathogens, and increased mortality rates. Abalone (genus Haliotis) are an ecologically significant group of marine gastropods and are among the most highly valued seafood products. However, heat stress events have had devastating impacts on both farmed and wild populations. Members of this genus are among the most susceptible marine species to climate change impacts, with over 40% of all abalone species listed as threatened with extinction. This has motivated researchers to explore the genetics linked to heat stress in abalone. A substantial portion of publicly available studies has employed transcriptomic approaches to investigate abalone genetic response to heat stress. However, to date, no meta-analysis has been conducted to determine the common response to heat stress (i.e. the core response) across the genus. This study uses a standardized bioinformatic pipeline to reanalyze and compare publicly available RNA-seq datasets from different heat stress studies on abalone. Results Nine publicly available RNA-seq datasets from nine different heat-stress studies on abalone from seven different abalone species and three hybrids were included in the meta-analysis. We identified a core set of 74 differentially expressed genes (DEGs) in response to heat stress in at least seven out of nine studies. This core set of DEGs mainly included genes associated with alternative splicing, heat shock proteins (HSPs), Ubiquitin–Proteasome System (UPS), and other protein folding and protein processing pathways. Conclusions The detection of a consistent set of genes that respond to heat stress across various studies, despite differences in experimental design (e.g. stress intensity, species studied—geographical distribution, preferred temperature range, etc.), strengthens our proposal that these genes are key elements of the heat stress response in abalone. The identification of the core response to heat stress in abalone lays an important foundation for future research. Ultimately, this study will aid conservation efforts and aquaculture through the identification of resilient populations, genetic-based breeding programs, possible manipulations such as early exposure to stress, gene editing and the use of immunostimulants to enhance thermal tolerance.

The Journey Behind the Research

Abalone, marine gastropods of the genus Haliotis, are ecologically vital, culturally significant, and prized as a premium seafood delicacy. Unfortunately, over 40% of abalone species are currently threatened with extinction. Driven by climate change and overexploitation, both wild and farmed populations are facing alarming declines. Understanding the genetic mechanisms underlying heat stress responses is essential for conserving these remarkable organisms and ensuring the long-term sustainability of abalone aquaculture.

Heat stress is the most widely studied environmental challenge in abalone research, and for good reason. As marine heatwaves become more frequent and intense due to climate change, both wild and farmed abalone populations are increasingly at risk. In response, researchers around the world have been using transcriptomic tools to understand how abalone react at the molecular level when exposed to high temperatures.

Over the years, numerous studies have investigated these responses in various species, under diverse conditions, and at different life stages. However, most of these studies were done independently, each providing only a piece of the puzzle. We realized this growing collection of data represented a unique opportunity: what if we could bring them all together and look for the common genes? In other words, are there core genes or pathways that are consistently activated when abalones face thermal stress, regardless of species, stress intensity or any other experimental factor (other than heat stress)?

To answer this, we conducted a large-scale meta-analysis of publicly available RNA-seq datasets. Our goal was to integrate and reanalyze these studies through a single, consistent pipeline to uncover shared genetic patterns. Ultimately, we hoped to identify the key molecular players that help abalone survive in warming oceans and provide insights that could support climate-resilient aquaculture in the future.

 

Key Findings

Through rigorous meta-analysis, we identified a remarkable pattern: a core set of 74 genes consistently responded to heat stress across most of the studies. These genes weren’t random as they formed a cohesive network of molecular defenders. What was most exciting, though, was the consistency. Despite differences in geography, species, temperature treatments, and tissue types, the same core genetic response kept showing up. This suggests a conserved heat-response toolkit—a genetic response shaped by years of evolution. The main “tool” (i.e. genes/pathways) identified in this core toolkit included:

  • Heat Shock Proteins (HSPs): crucial for protein folding and protection against thermal damage.
  • Ubiquitin–Proteasome System (UPS): involved in protein degradation and turnover.
  • Alternative Splicing Mechanisms: allowing for versatile gene expression in response to stress.

Implications and Future Directions

Identifying this core genetic response provides a foundation for developing strategies to enhance the resilience of abalone. Potential applications include:

  1. Selective Breeding: utilizing genetic markers to breed heat-tolerant abalone strains.
  2. Early Stress Exposure: conditioning juveniles to moderate heat stress to build resilience.
  3. Gene Editing: exploring targeted interventions to bolster stress-response pathways.

We uncovered a core set of genes, the abalone’s genetic armour, consistently activated under heat stress. These insights unlock pathways for conservation and climate-resilient aquaculture. As marine heatwaves intensify in frequency and severity, findings like these are crucial not only for the conservation of abalone but also for protecting other vulnerable marine species. 

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Genetics and Genomics
Life Sciences > Biological Sciences > Genetics and Genomics
Transcriptomics
Life Sciences > Biological Sciences > Genetics and Genomics > Molecular Genetics > Gene Expression > Gene Expression Analysis > Transcriptomics
Aquaculture
Physical Sciences > Earth and Environmental Sciences > Earth Sciences > Ocean Sciences > Marine Biology > Aquaculture
Conservation genomics
Life Sciences > Biological Sciences > Genetics and Genomics > Ecological Genetics > Conservation genomics
SDG 14: Life Below Water
Research Communities > Community > Sustainability > UN Sustainable Development Goals (SDG) > SDG 14: Life Below Water

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