Plastic and Evolved Responses to Global Change: What Can We Learn from Comparative Transcriptomics?: Table 1.

DeBiasse, Melissa B.; Kelly, Morgan W.

doi:10.1093/jhered/esv073

Cited by 98 publications

(93 citation statements)

References 130 publications

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“…Although the concentration and composition of these nutrients is well known to shape phytoplankton communities and influence physiological responses, the diversity of metabolic responses that underpin phenotypic changes in phytoplankton remains unknown in many cases. Gaining insight into these metabolic responses that drive phenotypic change can help define the physiological plasticity of organisms and their concomitant influence on marine food webs and carbon export (Azam et al, 1983; Longhurst and Glen Harrison, 1989; Ducklow et al, 2001; DeBiasse and Kelly, 2016). …”

Section: Introductionmentioning

confidence: 99%

Conserved Transcriptional Responses to Nutrient Stress in Bloom-Forming Algae

et al. 2017

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The concentration and composition of bioavailable nitrogen (N) and phosphorus (P) in the upper ocean shape eukaryotic phytoplankton communities and influence their physiological responses. Phytoplankton are known to exhibit similar physiological responses to limiting N and P conditions such as decreased growth rates, chlorosis, and increased assimilation of N and P. Are these responses similar at the molecular level across multiple species? To interrogate this question, five species from biogeochemically important, bloom-forming taxa (Bacillariophyta, Dinophyta, and Haptophyta) were grown under similar low N, low P, and replete nutrient conditions to identify transcriptional patterns and associated changes in biochemical pools related to N and P stress. Metabolic profiles, revealed through the transcriptomes of these taxa, clustered together based on species rather than nutrient stressor, suggesting that the global metabolic response to nutrient stresses was largely, but not exclusively, species-specific. Nutrient stress led to few transcriptional changes in the two dinoflagellates, consistent with other research. An orthologous group analysis examined functionally conserved (i.e., similarly changed) responses to nutrient stress and therefore focused on the diatom and haptophytes. Most conserved ortholog changes were specific to a single nutrient treatment, but a small number of orthologs were similarly changed under both N and P stress in 2 or more species. Many of these orthologs were related to photosynthesis and may represent generalized stress responses. A greater number of orthologs were conserved across more than one species under low P compared to low N. Screening the conserved orthologs for functions related to N and P metabolism revealed increased relative abundance of orthologs for nitrate, nitrite, ammonium, and amino acid transporters under N stress, and increased relative abundance of orthologs related to acquisition of inorganic and organic P substrates under P stress. Although the global transcriptional responses were dominated by species-specific changes, the analysis of conserved responses revealed functional similarities in resource acquisition pathways among different phytoplankton taxa. This overlap in nutrient stress responses observed among species may be useful for tracking the physiological ecology of phytoplankton field populations.

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Section: Introductionmentioning

confidence: 99%

Conserved Transcriptional Responses to Nutrient Stress in Bloom-Forming Algae

et al. 2017

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“…Studies on multiple stressors have received increasing attention for their potential to reveal interesting information, which would be difficult to predict based on single stressor approaches (DeBiasse and Kelly, 2016;Gunderson et al, 2016), as well as to increase our understanding of responses to global change in natural multivariate environments (Hewitt et al, 2016). However, these approaches are still scarce in the literature and are mostly focused on the combined effects of temperature with other factors (e.g.…”

Section: Introductionmentioning

confidence: 99%

Aquatic insects in a multistress environment: cross-tolerance to salinity and desiccation

Pallarés

Botella‐Cruz

Arribas

et al. 2017

Journal of Experimental Biology

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Exposing organisms to a particular stressor may enhance tolerance to a subsequent stress, when protective mechanisms against the two stressors are shared. Such cross-tolerance is a common adaptive response in dynamic multivariate environments and often indicates potential co-evolution of stress traits. Many aquatic insects in inland saline waters from Mediterranean-climate regions are sequentially challenged with salinity and desiccation stress. Thus, cross-tolerance to these physiologically similar stressors could have been positively selected in insects of these regions. We used adults of the saline water beetles Enochrus jesusarribasi (Hydrophilidae) and Nebrioporus baeticus (Dytiscidae) to test cross-tolerance responses to desiccation and salinity. In independent laboratory experiments, we evaluated the effects of (i) salinity stress on the subsequent resistance to desiccation and (ii) desiccation stress (rapid and slow dehydration) on the subsequent tolerance to salinity. Survival, water loss and haemolymph osmolality were measured. Exposure to stressful salinity improved water control under subsequent desiccation stress in both species, with a clear cross-tolerance (enhanced performance) in N. baeticus. In contrast, general negative effects on performance were found under the inverse stress sequence. The rapid and slow dehydration produced different water loss and haemolymph osmolality dynamics that were reflected in different survival patterns. Our finding of cross-tolerance to salinity and desiccation in ecologically similar species from distant lineages, together with parallel responses between salinity and thermal stress previously found in several aquatic taxa, highlights the central role of adaption to salinity and co-occurring stressors in arid inland waters, having important implications for the species' persistence under climate change.

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“…This pattern is common for nonmodel species, and BLAST tools are known to fail for annotation of around 75% of the genes for de novo assemblies (Chiara et al, 2013; DeBiasse and Kelly, 2016). Gene ontologies indicated that the proportion of assembled genes associated with each functional category is similar between species, and that the de novo assemblies are comparable (Fig.…”

Section: Methods and Resultsmentioning

confidence: 99%

Transcriptomic resources for an endemic Neotropical plant lineage (Gesneriaceae)

et al. 2017

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Premise of the study:Despite the extensive phenotypic variation that characterizes the Gesneriaceae family, there is a lack of genomic resources to investigate the molecular basis of their diversity. We developed and compared the transcriptomes for two species of the Neotropical lineage of the Gesneriaceae.Methods and Results:Illumina sequencing and de novo assembly of floral and leaf samples were used to generate multigene sequence data for Sinningia eumorpha and S. magnifica, two species endemic to the Brazilian Atlantic Forest. A total of 300 million reads were used to assemble the transcriptomes, with an average of 92,038 transcripts and 43,506 genes per species. The transcriptomes showed good quality metrics, with the presence of all eukaryotic core genes, and an equal representation of clusters of orthologous groups (COG) classifications between species. The orthologous search produced 8602 groups, with 15–20% of them annotated using BLAST tools.Discussion:This study provides the first step toward a comprehensive multispecies transcriptome characterization of the Gesneriaceae family. These resources are the basis for comparative analyses in this species-rich Neotropical plant group; they will also allow the investigation of the evolutionary importance of multiple metabolic pathways and phenotypic diversity, as well as developmental programs in these nonmodel species.

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Plastic and Evolved Responses to Global Change: What Can We Learn from Comparative Transcriptomics?: Table 1.

Cited by 98 publications

References 130 publications

Conserved Transcriptional Responses to Nutrient Stress in Bloom-Forming Algae

Conserved Transcriptional Responses to Nutrient Stress in Bloom-Forming Algae

Aquatic insects in a multistress environment: cross-tolerance to salinity and desiccation

Transcriptomic resources for an endemic Neotropical plant lineage (Gesneriaceae)

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