51
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Yin D, Zhou R, Yin M, Chen Y, Xu S, Yang G. Gene duplication and loss of AANAT in mammals driven by rhythmic adaptations. Mol Biol Evol 2021; 38:3925-3937. [PMID: 33944919 PMCID: PMC8382898 DOI: 10.1093/molbev/msab125] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Arylalkylamine N-acetyltransferase (AANAT) plays a crucial role in synchronizing internal biological functions to circadian and circannual changes. Generally speaking, only one copy of AANAT gene has been found in mammals, however, three independent duplications of this gene were detected in several cetartiodactyl lineages (i.e., Suidae, Hippopotamidae, and Pecora), which originated in the middle Eocene, a geological period characterized with the increased climate seasonality. Lineage-specific expansions of AANAT and the associated functional enhancement in these lineages strongly suggest an improvement in regulating photoperiodic response to adapt to seasonal climate changes. In contrast, independent inactivating mutations or deletions of the AANAT locus were identified in the four pineal-deficient clades (cetaceans, sirenians, xenarthrans, and pangolins). Loss of AANAT function in cetaceans and sirenians could disrupt the sleep-promoting effects of pineal melatonin, which might contribute to increasing wakefulness, adapting these clades to underwater sleep. The absence of AANAT and pineal glands in xenarthrans and pangolins may be associated with their body temperature maintenance. The present work demonstrates a far more complex and intriguing evolutionary pattern and functional diversity of mammalian AANAT genes than previously thought and provides further evidence for understanding AANAT evolution as driven by rhythmic adaptations in mammals.
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Affiliation(s)
- Daiqing Yin
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
| | - RuRu Zhou
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
| | - Mengxin Yin
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
| | - Yue Chen
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
| | - Shixia Xu
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
| | - Guang Yang
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
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52
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McClung CR. Circadian Clock Components Offer Targets for Crop Domestication and Improvement. Genes (Basel) 2021; 12:genes12030374. [PMID: 33800720 PMCID: PMC7999361 DOI: 10.3390/genes12030374] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2021] [Revised: 03/01/2021] [Accepted: 03/04/2021] [Indexed: 12/31/2022] Open
Abstract
During plant domestication and improvement, farmers select for alleles present in wild species that improve performance in new selective environments associated with cultivation and use. The selected alleles become enriched and other alleles depleted in elite cultivars. One important aspect of crop improvement is expansion of the geographic area suitable for cultivation; this frequently includes growth at higher or lower latitudes, requiring the plant to adapt to novel photoperiodic environments. Many crops exhibit photoperiodic control of flowering and altered photoperiodic sensitivity is commonly required for optimal performance at novel latitudes. Alleles of a number of circadian clock genes have been selected for their effects on photoperiodic flowering in multiple crops. The circadian clock coordinates many additional aspects of plant growth, metabolism and physiology, including responses to abiotic and biotic stresses. Many of these clock-regulated processes contribute to plant performance. Examples of selection for altered clock function in tomato demonstrate that with domestication, the phasing of the clock is delayed with respect to the light–dark cycle and the period is lengthened; this modified clock is associated with increased chlorophyll content in long days. These and other data suggest the circadian clock is an attractive target during breeding for crop improvement.
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Affiliation(s)
- C Robertson McClung
- Department of Biological Sciences, Dartmouth College, Hanover, NH 03755, USA
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53
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Abstract
How ecosystem biodiversity is maintained remains a persistent question in the field of ecology. Here, I present a new coexistence theory, i.e. diversity of biological rhythm. Circadian, circalunar and circannual rhythms, which control short- and long-term activities, are identified as universal phenomena in organisms. Analysis of a theoretical food web with diel, monthly and annual cycles in foraging activity for each organism shows that diverse biological cycles play key roles in maintaining complex communities. Each biological rhythm does not have a strong stabilizing effect independently but enhances community persistence when combined with other rhythms. Biological rhythms also mitigate inherent destabilization tendencies caused by food web complexity. Temporal weak interactions due to hybridity of multiple activity cycles play a key role toward coexistence. Polyrhythmic changes in biological activities in response to the Earth's rotation may be a key factor in maintaining biological communities.
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Affiliation(s)
- Akihiko Mougi
- Institute of Agricultural and Life Sciences, Academic Assembly, Shimane University, 1060 Nishikawatsu-cho, Matsue 690-8504, Japan
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54
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Elderbrock EK, Hau M, Greives TJ. Sex steroids modulate circadian behavioral rhythms in captive animals, but does this matter in the wild? Horm Behav 2021; 128:104900. [PMID: 33245879 DOI: 10.1016/j.yhbeh.2020.104900] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Revised: 10/21/2020] [Accepted: 11/17/2020] [Indexed: 12/14/2022]
Abstract
Nearly all organisms alter physiological and behavioral activities across the twenty-four-hour day. Endogenous timekeeping mechanisms, which are responsive to environmental and internal cues, allow organisms to anticipate predictable environmental changes and time their daily activities. Among-individual variation in the chronotype, or phenotypic output of these timekeeping mechanisms (i.e. timing of daily behaviors), is often observed in organisms studied under naturalistic environmental conditions. The neuroendocrine system, including sex steroids, has been implicated in the regulation and modulation of endogenous clocks and their behavioral outputs. Numerous studies have found clear evidence that sex steroids modulate circadian and daily timing of activities in captive animals under controlled conditions. However, little is known about how sex steroids influence daily behavioral rhythms in wild organisms or what, if any, implication this may have for survival and reproductive fitness. Here we review the evidence that sex steroids modulate daily timing in vertebrates under controlled conditions. We then discuss how this relationship may be relevant for the reproductive success and fitness of wild organisms and discuss the limited evidence that sex steroids modulate circadian rhythms in wild organisms.
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Affiliation(s)
- Emily K Elderbrock
- North Dakota State University, Department of Biological Sciences, Fargo, ND, USA.
| | - Michaela Hau
- Max Planck Institute for Ornithology, Evolutionary Physiology Research Group, Seewiesen, Germany; University of Konstanz, Department of Biology, Konstanz, Germany
| | - Timothy J Greives
- North Dakota State University, Department of Biological Sciences, Fargo, ND, USA
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55
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He Z, Su Y, Wang T. Full-Length Transcriptome Analysis of Four Different Tissues of Cephalotaxus oliveri. Int J Mol Sci 2021; 22:ijms22020787. [PMID: 33466772 PMCID: PMC7830723 DOI: 10.3390/ijms22020787] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2020] [Revised: 12/30/2020] [Accepted: 01/02/2021] [Indexed: 02/07/2023] Open
Abstract
Cephalotaxus oliveri is a tertiary relict conifer endemic to China, regarded as a national second-level protected plant in China. This species has experienced severe changes in temperature and precipitation in the past millions of years, adapting well to harsh environments. In view of global climate change and its endangered conditions, it is crucial to study how it responds to changes in temperature and precipitation for its conservation work. In this study, single-molecule real-time (SMRT) sequencing and Illumina RNA sequencing were combined to generate the complete transcriptome of C. oliveri. Using the RNA-seq data to correct the SMRT sequencing data, the four tissues obtained 63,831 (root), 58,108 (stem), 33,013 (leaf) and 62,436 (male cone) full-length unigenes, with a N50 length of 2523, 3480, 3181, and 3267 bp, respectively. Additionally, 35,887, 11,306, 36,422, and 25,439 SSRs were detected for the male cone, leaf, root, and stem, respectively. The number of long non-coding RNAs predicted from the root was the largest (11,113), and the other tissues were 3408 (stem), 3193 (leaf), and 3107 (male cone), respectively. Functional annotation and enrichment analysis of tissue-specific expressed genes revealed the special roles in response to environmental stress and adaptability in the different four tissues. We also characterized the gene families and pathways related to abiotic factors. This work provides a comprehensive transcriptome resource for C. oliveri, and this resource will facilitate further studies on the functional genomics and adaptive evolution of C. oliveri.
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Affiliation(s)
- Ziqing He
- School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China;
| | - Yingjuan Su
- School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China;
- Research Institute of Sun Yat-sen University in Shenzhen, Shenzhen 518057, China
- Correspondence: (Y.S.); (T.W.); Tel.: +86-020-84111939 (Y.S.); +86-020-85280185 (T.W.)
| | - Ting Wang
- College of Life Sciences, South China Agricultural University, Guangzhou 510642, China
- Correspondence: (Y.S.); (T.W.); Tel.: +86-020-84111939 (Y.S.); +86-020-85280185 (T.W.)
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56
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Mougi A. Polyrhythmic foraging and competitive coexistence. Sci Rep 2020; 10:20282. [PMID: 33219304 PMCID: PMC7679447 DOI: 10.1038/s41598-020-77483-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2020] [Accepted: 11/06/2020] [Indexed: 11/09/2022] Open
Abstract
The current ecological understanding still does not fully explain how biodiversity is maintained. One strategy to address this issue is to contrast theoretical prediction with real competitive communities where diverse species share limited resources. I present, in this study, a new competitive coexistence theory-diversity of biological rhythms. I show that diversity in activity cycles plays a key role in coexistence of competing species, using a two predator-one prey system with diel, monthly, and annual cycles for predator foraging. Competitive exclusion always occurs without activity cycles. Activity cycles do, however, allow for coexistence. Furthermore, each activity cycle plays a different role in coexistence, and coupling of activity cycles can synergistically broaden the coexistence region. Thus, with all activity cycles, the coexistence region is maximal. The present results suggest that polyrhythmic changes in biological activity in response to the earth's rotation and revolution are key to competitive coexistence. Also, temporal niche shifts caused by environmental changes can easily eliminate competitive coexistence.
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Affiliation(s)
- Akihiko Mougi
- Institute of Agricultural and Life Sciences, Academic Assembly, Shimane University, 1060 Nishikawatsu-cho, Matsue, 690-8504, Japan.
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57
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Maric A, Mas P. Chromatin Dynamics and Transcriptional Control of Circadian Rhythms in Arabidopsis. Genes (Basel) 2020; 11:E1170. [PMID: 33036236 PMCID: PMC7601625 DOI: 10.3390/genes11101170] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Revised: 10/01/2020] [Accepted: 10/04/2020] [Indexed: 02/06/2023] Open
Abstract
Circadian rhythms pervade nearly all aspects of plant growth, physiology, and development. Generation of the rhythms relies on an endogenous timing system or circadian clock that generates 24-hour oscillations in multiple rhythmic outputs. At its bases, the plant circadian function relies on dynamic interactive networks of clock components that regulate each other to generate rhythms at specific phases during the day and night. From the initial discovery more than 13 years ago of a parallelism between the oscillations in chromatin status and the transcriptional rhythms of an Arabidopsis clock gene, a number of studies have later expanded considerably our view on the circadian epigenome and transcriptome landscapes. Here, we describe the most recent identification of chromatin-related factors that are able to directly interact with Arabidopsis clock proteins to shape the transcriptional waveforms of circadian gene expression and clock outputs. We discuss how changes in chromatin marks associate with transcript initiation, elongation, and the rhythms of nascent RNAs, and speculate on future interesting research directions in the field.
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Affiliation(s)
- Aida Maric
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, 08193 Barcelona, Spain;
| | - Paloma Mas
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, 08193 Barcelona, Spain;
- Consejo Superior de Investigaciones Científicas (CSIC), 08028 Barcelona, Spain
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58
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Cascant-Lopez E, Crosthwaite SK, Johnson LJ, Harrison RJ. No Evidence That Homologs of Key Circadian Clock Genes Direct Circadian Programs of Development or mRNA Abundance in Verticillium dahliae. Front Microbiol 2020; 11:1977. [PMID: 33013740 PMCID: PMC7493669 DOI: 10.3389/fmicb.2020.01977] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2020] [Accepted: 07/27/2020] [Indexed: 01/24/2023] Open
Abstract
Many organisms harbor circadian clocks that promote their adaptation to the rhythmic environment. While a broad knowledge of the molecular mechanism of circadian clocks has been gained through the fungal model Neurospora crassa, little is known about circadian clocks in other fungi. N. crassa belongs to the same class as many important plant pathogens including the vascular wilt fungus Verticillium dahliae. We identified homologs of N. crassa clock proteins in V. dahliae, which showed high conservation in key protein domains. However, no evidence for an endogenous, free-running and entrainable rhythm was observed in the daily formation of conidia and microsclerotia. In N. crassa the frequency (frq) gene encodes a central clock protein expressed rhythmically and in response to light. In contrast, expression of Vdfrq is not light-regulated. Temporal gene expression profiling over 48 h in constant darkness and temperature revealed no circadian expression of key clock genes. Furthermore, RNA-seq over a 24 h time-course revealed no robust oscillations of clock-associated transcripts in constant darkness. Comparison of gene expression between wild-type V. dahliae and a ΔVdfrq mutant showed that genes involved in metabolism, transport and redox processes are mis-regulated in the absence of Vdfrq. In addition, VdΔfrq mutants display growth defects and reduced pathogenicity in a strain dependent manner. Our data indicate that if a circadian clock exists in Verticillium, it is based on alternative mechanisms such as post-transcriptional interactions of VdFRQ and the WC proteins or the components of a FRQ-less oscillator. Alternatively, it could be that whilst the original functions of the clock proteins have been maintained, in this species the interactions that generate robust rhythmicity have been lost or are only triggered when specific environmental conditions are met. The presence of conserved clock genes in genomes should not be taken as definitive evidence of circadian function.
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Affiliation(s)
| | | | - Louise J Johnson
- The School of Biological Sciences, University of Reading, Reading, United Kingdom
| | - Richard J Harrison
- Genetics, Genomics and Breeding, NIAB EMR, East Malling, United Kingdom.,National Institute of Agricultural Botany (NIAB), Cambridge, United Kingdom
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59
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Gao VD, Morley‐Fletcher S, Maccari S, Vitaterna MH, Turek FW. Resource competition shapes biological rhythms and promotes temporal niche differentiation in a community simulation. Ecol Evol 2020; 10:11322-11334. [PMID: 33144967 PMCID: PMC7593148 DOI: 10.1002/ece3.6770] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2020] [Revised: 08/02/2020] [Accepted: 08/06/2020] [Indexed: 11/16/2022] Open
Abstract
Competition for resources often contributes strongly to defining an organism's ecological niche. Endogenous biological rhythms are important adaptations to the temporal dimension of niches, but how other organisms influence such temporal niches has not been much studied, and the role of competition in particular has been even less examined. We investigated how interspecific competition and intraspecific competition for resources shape an organism's activity rhythms.To do this, we simulated communities of one or two species in an agent-based model. Individuals in the simulation move according to a circadian activity rhythm and compete for limited resources. Probability of reproduction is proportional to an individual's success in obtaining resources. Offspring may have variance in rhythm parameters, which allow for the population to evolve over time.We demonstrate that when organisms are arrhythmic, one species will always be competitively excluded from the environment, but the existence of activity rhythms allows niche differentiation and indefinite coexistence of the two species. Two species which are initially active at the same phase will differentiate their phase angle of entrainment over time to avoid each other. When only one species is present in an environment, competition within the species strongly selects for niche expansion through arrhythmicity, but the addition of an interspecific competitor facilitates evolution of increased rhythmic amplitude when combined with additional adaptations for temporal specialization. Finally, if individuals preferentially mate with others who are active at similar times of day, then disruptive selection by intraspecific competition can split one population into two reproductively isolated groups separated in activity time.These simulations suggest that biological rhythms are an effective method to temporally differentiate ecological niches and that competition is an important ecological pressure promoting the evolution of rhythms and sleep. This is the first study to use ecological modeling to examine biological rhythms.
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Affiliation(s)
- Vance Difan Gao
- UMR 8576 Unité de Glycobiologie Structurale et FonctionnelleCNRSUniversity of LilleLilleFrance
- Center for Sleep and Circadian BiologyNorthwestern UniversityEvanstonILUSA
| | - Sara Morley‐Fletcher
- UMR 8576 Unité de Glycobiologie Structurale et FonctionnelleCNRSUniversity of LilleLilleFrance
- International Associated Laboratory (LIA) “Perinatal Stress and Neurodegenerative Diseases”University of LilleLilleFrance
| | - Stefania Maccari
- UMR 8576 Unité de Glycobiologie Structurale et FonctionnelleCNRSUniversity of LilleLilleFrance
- International Associated Laboratory (LIA) “Perinatal Stress and Neurodegenerative Diseases”University of LilleLilleFrance
- Department of Medico‐Surgical Sciences and BiotechnologiesUniversity Sapienza of RomeRomeItaly
| | | | - Fred W. Turek
- Center for Sleep and Circadian BiologyNorthwestern UniversityEvanstonILUSA
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60
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Abstract
PURPOSE OF REVIEW This review aims to explore how circadian rhythms influence disease susceptibility and potentially modify the effect of environmental exposures. We aimed to identify biomarkers commonly used in environmental health research that have also been the subject of chronobiology studies, in order to review circadian rhythms of relevance to environmental health and determine if time-of-day is an important factor to consider in environmental health studies. Moreover, we discuss opportunities for studying how environmental exposures may interact with circadian rhythms to structure disease pathology and etiology. RECENT FINDINGS In recent years, the study of circadian rhythms in mammals has flourished. Animal models revealed that all body tissues have circadian rhythms. In humans, circadian rhythms were also shown to exist at multiple levels of organization: molecular, cellular, and physiological processes, including responding to oxidative stress, cell trafficking, and sex hormone production, respectively. Together, these rhythms are an essential component of human physiology and can shape an individual's susceptibility and response to disease. Circadian rhythms are relatively unexplored in environmental health research. However, circadian clocks control many physiological and behavioral processes that impact exposure pathways and disease systems. We believe this review will motivate new studies of (i) the impact of exposures on circadian rhythms, (ii) how circadian rhythms modify the effect of environmental exposures, and (iii) how time-of-day impacts our ability to observe the body's response to exposure.
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Affiliation(s)
- Jacqueline M Leung
- Department of Environmental Health Sciences, Columbia University, 630 West 168th Street, Room 16-421C, New York, NY, USA
| | - Micaela E Martinez
- Department of Environmental Health Sciences, Columbia University, 630 West 168th Street, Room 16-421C, New York, NY, USA.
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61
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Lamar SK, Beddows I, Partridge CG. Examining the molecular mechanisms contributing to the success of an invasive species across different ecosystems. Ecol Evol 2020; 10:10254-10270. [PMID: 33005380 PMCID: PMC7520182 DOI: 10.1002/ece3.6688] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2020] [Accepted: 07/27/2020] [Indexed: 11/16/2022] Open
Abstract
Invasive species provide an opportune system to investigate how populations respond to new environments. Baby's breath (Gypsophila paniculata) was introduced to North America in the 1800s and has since spread throughout the United States and western Canada. We used an RNA-seq approach to explore how molecular processes contribute to the success of invasive populations with similar genetic backgrounds across distinct habitats. Transcription profiles were constructed from seedlings collected from a sand dune ecosystem in Petoskey, MI (PSMI), and a sagebrush ecosystem in Chelan, WA (CHWA). We assessed differential gene expression and identified SNPs within differentially expressed genes. We identified 1,146 differentially expressed transcripts across all sampled tissues between the two populations. GO processes enriched in PSMI were associated with nutrient starvation, while enriched processes in CHWA were associated with abiotic stress. Only 7.4% of the differentially expressed transcripts contained SNPs differing in allele frequencies of at least 0.5 between populations. Common garden studies found the two populations differed in germination rate and seedling emergence success. Our results suggest the success of G. paniculata in these two environments is likely due to plasticity in specific molecular processes responding to different environmental conditions, although some genetic divergence may be contributing to these differences.
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Affiliation(s)
- Sarah K. Lamar
- Annis Water Resources InstituteGrand Valley State UniversityMuskegonMichiganUSA
- Present address:
School of Biological SciencesVictoria University of WellingtonWellingtonNew Zealand
| | - Ian Beddows
- Center for EpigeneticsVan Andel InstituteGrand RapidsMichiganUSA
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62
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Perrigault M, Andrade H, Bellec L, Ballantine C, Camus L, Tran D. Rhythms during the polar night: evidence of clock-gene oscillations in the Arctic scallop Chlamys islandica. Proc Biol Sci 2020; 287:20201001. [PMID: 32811311 DOI: 10.1098/rspb.2020.1001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
Arctic regions are highly impacted by climate change and are characterized by drastic seasonal changes in light intensity and duration with extended periods of permanent light or darkness. Organisms use cyclic variations in light to synchronize daily and seasonal biological rhythms to anticipate cyclic variations in the environment, to control phenology and to maintain fitness. In this study, we investigated the diel biological rhythms of the Arctic scallop, Chlamys islandica, during the autumnal equinox and polar night. Putative circadian clock genes and putative light perception genes were identified in the Arctic scallop. Clock gene expression oscillated in the three tissues studied (gills, muscle, mantle edge). The oscillation of some genes in some tissues shifted from daily to tidal periodicity between the equinox and polar night periods and was associated with valve behaviour. These results are the first evidence of the persistence of clock gene expression oscillations during the polar night and might suggest that functional clockwork could entrain rhythmic behaviours in polar environments.
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Affiliation(s)
- Mickael Perrigault
- University of Bordeaux, EPOC, UMR 5805, 33120 Arcachon, France.,CNRS, EPOC, UMR 5805, 33120 Arcachon, France
| | | | - Laure Bellec
- University of Bordeaux, EPOC, UMR 5805, 33120 Arcachon, France.,CNRS, EPOC, UMR 5805, 33120 Arcachon, France
| | | | - Lionel Camus
- Akvaplan-niva AS, Fram Centre, 9296 Tromsø, Norway
| | - Damien Tran
- University of Bordeaux, EPOC, UMR 5805, 33120 Arcachon, France.,CNRS, EPOC, UMR 5805, 33120 Arcachon, France
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63
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Tichagwa T, Pegg N, Ndagurwa HGT, Zhuwau C. Factors influencing the diurnal behaviour of white rhino (
Ceratotherium simum
) in Matobo National Park, Zimbabwe. Afr J Ecol 2020. [DOI: 10.1111/aje.12770] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Tafadzwa Tichagwa
- Dambari Wildlife Trust Bulawayo Zimbabwe
- Department of Forest Resources & Wildlife Management/Forest Ecology Laboratory Faculty of Applied Science National University of Science & Technology Bulawayo Zimbabwe
| | | | - Hilton G. T. Ndagurwa
- Department of Forest Resources & Wildlife Management/Forest Ecology Laboratory Faculty of Applied Science National University of Science & Technology Bulawayo Zimbabwe
- School of Animal, Plant and Environmental Sciences University of the Witwatersrand Wits South Africa
| | - Colum Zhuwau
- Scientific Services Matobo National ParkParks and Wildlife Management Authority Kezi Zimbabwe
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64
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Huffeldt NP. Photic Barriers to Poleward Range-shifts. Trends Ecol Evol 2020; 35:652-655. [DOI: 10.1016/j.tree.2020.04.011] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2020] [Revised: 04/27/2020] [Accepted: 04/29/2020] [Indexed: 01/30/2023]
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65
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Detecting Soil Microarthropods with a Camera-Supported Trap. INSECTS 2020; 11:insects11040244. [PMID: 32295253 PMCID: PMC7240604 DOI: 10.3390/insects11040244] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/28/2020] [Revised: 04/09/2020] [Accepted: 04/10/2020] [Indexed: 12/24/2022]
Abstract
There is an increasing need to monitor activity and population growth of arthropods; however, this is a time-consuming and financially demanding process. Using sensors to detect arthropods in the field can help to follow their dynamics in time. Improving our earlier device, we developed a new camera-supported probe to detect soil microarthropods. An opto-electronic sensor ring detects the caught microarthropod individuals what activates a camera. The camera takes pictures of a specimen when it arrives in the camera chamber. A vacuum device was built into the probe which pumps up the specimen from the probe to a sample container. Here, we describe the construction and operation of the probe. We investigated the precision of the process in a laboratory experiment using living microarthropods and evaluated the accuracy of the probes in a semi-natural investigation when environmental noise was present. Under semi-natural conditions, the percentages of success, i.e., the photographed specimens compared to the caught ones, were between 60% and 70% at the investigated taxa. The automatic camera shooting helped in distinguishing insects from irrelevant detections while collecting the trapped insects allowed species-level determination. This information together serves as a basis for the automatic visual recognition of microarthropod species.
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66
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Dominoni DM, Kjellberg Jensen J, de Jong M, Visser ME, Spoelstra K. Artificial light at night, in interaction with spring temperature, modulates timing of reproduction in a passerine bird. ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2020; 30:e02062. [PMID: 31863538 PMCID: PMC7187248 DOI: 10.1002/eap.2062] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Revised: 09/18/2019] [Accepted: 11/05/2019] [Indexed: 05/09/2023]
Abstract
The ecological impact of artificial light at night (ALAN) on phenological events such as reproductive timing is increasingly recognized. In birds, previous experiments under controlled conditions showed that ALAN strongly advances gonadal growth, but effects on egg-laying date are less clear. In particular, effects of ALAN on timing of egg laying are found to be year-dependent, suggesting an interaction with climatic conditions such as spring temperature, which is known have strong effects on the phenology of avian breeding. Thus, we hypothesized that ALAN and temperature interact to regulate timing of reproduction in wild birds. Field studies have suggested that sources of ALAN rich in short wavelengths can lead to stronger advances in egg-laying date. We therefore tested this hypothesis in the Great Tit (Parus major), using a replicated experimental set-up where eight previously unlit forest transects were illuminated with either white, green, or red LED light, or left dark as controls. We measured timing of egg laying for 619 breeding events spread over six consecutive years and obtained temperature data for all sites and years. We detected overall significantly earlier egg-laying dates in the white and green light vs. the dark treatment, and similar trends for red light. However, there was a strong interannual variability in mean egg-laying dates in all treatments, which was explained by spring temperature. We did not detect any fitness consequence of the changed timing of egg laying due to ALAN, which suggests that advancing reproduction in response to ALAN might be adaptive.
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Affiliation(s)
- Davide M. Dominoni
- Department of Animal EcologyNetherlands Institute of Ecology (NIOO‐KNAW)WageningenThe Netherlands
- Institute of Biodiversity, Animal Health and Comparative MedicineUniversity of GlasgowGlasgowG128PG United Kingdom
| | | | - Maaike de Jong
- Department of Animal EcologyNetherlands Institute of Ecology (NIOO‐KNAW)WageningenThe Netherlands
- Plant Ecology and Nature Conservation GroupWageningen UniversityWageningenThe Netherlands
| | - Marcel E. Visser
- Department of Animal EcologyNetherlands Institute of Ecology (NIOO‐KNAW)WageningenThe Netherlands
| | - Kamiel Spoelstra
- Department of Animal EcologyNetherlands Institute of Ecology (NIOO‐KNAW)WageningenThe Netherlands
- Plant Ecology and Nature Conservation GroupWageningen UniversityWageningenThe Netherlands
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67
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Cheng Y, Chi Y, Zhang L, Wang GZ. A single factor dominates the behavior of rhythmic genes in mouse organs. BMC Genomics 2019; 20:879. [PMID: 31747875 PMCID: PMC6868821 DOI: 10.1186/s12864-019-6255-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2019] [Accepted: 10/31/2019] [Indexed: 11/10/2022] Open
Abstract
Background Circadian rhythm, regulated by both internal and external environment of the body, is a multi-scale biological oscillator of great complexity. On the molecular level, thousands of genes exhibit rhythmic transcription, which is both organ- and species-specific, but it remains a mystery whether some common factors could potentially explain their rhythmicity in different organs. In this study we address this question by analyzing the transcriptome data in 12 mouse organs to determine such major impacting factors. Results We found a strong positive correlation between the transcriptional level and rhythmic amplitude of circadian rhythmic genes in mouse organs. Further, transcriptional level could explain over 70% of the variation in amplitude. In addition, the functionality and tissue specificity were not strong predictors of amplitude, and the expression level of rhythmic genes was linked to the energy consumption associated with transcription. Conclusion Expression level is a single major factor impacts the behavior of rhythmic genes in mouse organs. This single determinant implicates the importance of rhythmic expression itself on the design of the transcriptional system. So, rhythmic regulation of highly expressed genes can effectively reduce the energetic cost of transcription, facilitating the long-term adaptive evolution of the entire genetic system.
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Affiliation(s)
- Yang Cheng
- CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai, China, Shanghai, 200031, China
| | - Yuhao Chi
- CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai, China, Shanghai, 200031, China
| | - Luoying Zhang
- Key Laboratory of Molecular Biophysics of Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Guang-Zhong Wang
- CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai, China, Shanghai, 200031, China.
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68
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Life after Harvest: Circadian Regulation in Photosynthetic Pigments of Rocket Leaves during Supermarket Storage Affects the Nutritional Quality. Nutrients 2019; 11:nu11071519. [PMID: 31277441 PMCID: PMC6682859 DOI: 10.3390/nu11071519] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2019] [Revised: 06/28/2019] [Accepted: 07/01/2019] [Indexed: 12/21/2022] Open
Abstract
Vegetables, once harvested and stored on supermarket shelves, continue to perform biochemical adjustments due to their modular nature and their ability to retain physiological autonomy. They can live after being harvested. In particular, the content of some essential nutraceuticals, such as carotenoids, can be altered in response to environmental or internal stimuli. Therefore, in the present study, we wondered whether endogenous rhythms continue to operate in commercial vegetables and if so, whether vegetable nutritional quality could be altered by such cycles. Our experimental model consisted of rocket leaves entrained under light/darkness cycles of 12/12 h over 3 days, and then we examined free-run oscillations for 2 days under continuous light or continuous darkness, which led to chlorophyll and carotenoid oscillations in both constant conditions. Given the importance of preserving food quality, the existence of such internal rhythms during continuous conditions may open new research perspective in nutrition science. However, while chromatographic techniques employed to determine pigment composition are accurate, they are also time-consuming and expensive. Here we propose for the first time an alternative method to estimate pigment content and the nutritional quality by the use of non-destructive and in situ optical techniques. These results are promising for nutritional quality assessments.
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69
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Thoré ESJ, Grégoir AF, Adriaenssens B, Philippe C, Stoks R, Brendonck L, Pinceel T. Population-, sex- and individual level divergence in life-history and activity patterns in an annual killifish. PeerJ 2019; 7:e7177. [PMID: 31293828 PMCID: PMC6599669 DOI: 10.7717/peerj.7177] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2019] [Accepted: 05/22/2019] [Indexed: 12/18/2022] Open
Abstract
Variation in life-history strategies along a slow-fast continuum is largely governed by life-history trade-offs. The pace-of-life syndrome hypothesis (POLS) expands on this idea and suggests coevolution of these traits with personality and physiology at different levels of biological organization. However, it remains unclear to what extent covariation at different levels aligns and if also behavioral patterns such as diurnal activity changes should be incorporated. Here, we investigate variation in life-history traits as well as behavioral variation at the individual, sex and population level in the Turquoise killifish Nothobranchius furzeri. We performed a common garden laboratory experiment with four populations that differ in pond permanence and scored life-history and behavioral (co-) variation at the individual and population level for both males and females. In addition, we focused on diurnal activity change as a behavioral trait that remains understudied in ecology. Our results demonstrate sex-specific variation in adult body size and diurnal activity change among populations that originate from ponds with differences in permanence. However, there was no pond permanence-dependent divergence in maturation time, juvenile growth rate, fecundity and average activity level. With regard to behavior, individuals differed consistently in locomotor activity and diurnal activity change while, in contrast with POLS predictions, we found no indications for life-history and behavioral covariation at any level. Overall, this study illustrates that diurnal activity change differs consistently between individuals, sexes and populations although this variation does not appear to match POLS predictions.
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Affiliation(s)
- Eli S J Thoré
- Animal Ecology, Global Change and Sustainable Development, KU Leuven, Leuven, Belgium
| | - Arnout F Grégoir
- Animal Ecology, Global Change and Sustainable Development, KU Leuven, Leuven, Belgium
| | - Bart Adriaenssens
- Institute of Biodiversity, Animal Health and Comparative Medicine, College of Medical, Veterinary and Life Sciences, University of Glasgow, Glasgow, United Kingdom
| | - Charlotte Philippe
- Animal Ecology, Global Change and Sustainable Development, KU Leuven, Leuven, Belgium.,Systemic Physiological and Ecotoxicological Research, University of Antwerp, Antwerp, Belgium
| | - Robby Stoks
- Evolutionary Stress Ecology and Ecotoxicology, KU Leuven, Leuven, Belgium
| | - Luc Brendonck
- Animal Ecology, Global Change and Sustainable Development, KU Leuven, Leuven, Belgium.,Water Research Group, Unit for Environmental Sciences and Management, North-West University, Potchefstroom, South Africa
| | - Tom Pinceel
- Animal Ecology, Global Change and Sustainable Development, KU Leuven, Leuven, Belgium.,Centre for Environmental Management, University of the Free State, Bloemfontein, South Africa
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70
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Härkönen L, Alioravainen N, Vainikka A, Hyvärinen P. Night reveals individuality in a shoaling fish. Behav Ecol 2019. [DOI: 10.1093/beheco/arz015] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Laura Härkönen
- Department of Ecology and Genetics, University of Oulu, Pentti Kaiteran katu, Oulu, Finland
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, Berkeley, CA, USA
- Aquatic population dynamics, Natural Resources Institute Finland (Luke), Paavo Havaksen tie, Oulu, Finland
| | - Nico Alioravainen
- Department of Environmental and Biological Sciences, University of Eastern Finland, Joensuu, Finland
| | - Anssi Vainikka
- Department of Environmental and Biological Sciences, University of Eastern Finland, Joensuu, Finland
| | - Pekka Hyvärinen
- Aquatic population dynamics, Kainuu Fisheries Research Station, Natural Resources Institute Finland (Luke), Manamansalontie,Paltamo, Finland
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71
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El Cheikh Hussein L, Mollard P, Bonnefont X. Molecular and Cellular Networks in The Suprachiasmatic Nuclei. Int J Mol Sci 2019; 20:ijms20082052. [PMID: 31027315 PMCID: PMC6514755 DOI: 10.3390/ijms20082052] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Revised: 04/18/2019] [Accepted: 04/23/2019] [Indexed: 12/20/2022] Open
Abstract
Why do we experience the ailments of jetlag when we travel across time zones? Why is working night-shifts so detrimental to our health? In other words, why can’t we readily choose and stick to non-24 h rhythms? Actually, our daily behavior and physiology do not simply result from the passive reaction of our organism to the external cycle of days and nights. Instead, an internal clock drives the variations in our bodily functions with a period close to 24 h, which is supposed to enhance fitness to regular and predictable changes of our natural environment. This so-called circadian clock relies on a molecular mechanism that generates rhythmicity in virtually all of our cells. However, the robustness of the circadian clock and its resilience to phase shifts emerge from the interaction between cell-autonomous oscillators within the suprachiasmatic nuclei (SCN) of the hypothalamus. Thus, managing jetlag and other circadian disorders will undoubtedly require extensive knowledge of the functional organization of SCN cell networks. Here, we review the molecular and cellular principles of circadian timekeeping, and their integration in the multi-cellular complexity of the SCN. We propose that new, in vivo imaging techniques now enable to address these questions directly in freely moving animals.
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Affiliation(s)
- Lama El Cheikh Hussein
- Institut de Génomique Fonctionnelle (IGF), University Montpellier, CNRS, INSERM, 34094 Montpellier, France.
| | - Patrice Mollard
- Institut de Génomique Fonctionnelle (IGF), University Montpellier, CNRS, INSERM, 34094 Montpellier, France.
| | - Xavier Bonnefont
- Institut de Génomique Fonctionnelle (IGF), University Montpellier, CNRS, INSERM, 34094 Montpellier, France.
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Abstract
The existence of a synthetic program of research on what was then termed the "nocturnal problem" and that we might now call "nighttime ecology" was declared more than 70 years ago. In reality, this failed to materialize, arguably as a consequence of practical challenges in studying organisms at night and instead concentrating on the existence of circadian rhythms, the mechanisms that give rise to them, and their consequences. This legacy is evident to this day, with consideration of the ecology of the nighttime markedly underrepresented in ecological research and literature. However, several factors suggest that it would be timely to revive the vision of a comprehensive research program in nighttime ecology. These include (i) that the study of the ecology of the night is being revolutionized by new and improved technologies; (ii) suggestions that, far from being a minor component of biodiversity, a high proportion of animal species are active at night; (iii) that fundamental questions about differences and connections between the ecology of the daytime and the nighttime remain largely unanswered; and (iv) that the nighttime environment is coming under severe anthropogenic pressure. In this article, I seek to reestablish nighttime ecology as a synthetic program of research, highlighting key focal topics and questions and providing an overview of the current state of understanding and developments.
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73
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Gil KE, Park CM. Thermal adaptation and plasticity of the plant circadian clock. THE NEW PHYTOLOGIST 2019; 221:1215-1229. [PMID: 30289568 DOI: 10.1111/nph.15518] [Citation(s) in RCA: 71] [Impact Index Per Article: 14.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2018] [Accepted: 09/11/2018] [Indexed: 05/20/2023]
Abstract
Contents Summary 1215 I. Introduction 1215 II. Molecular organization of the plant circadian clock 1216 III. Temperature compensation 1219 IV. Temperature regulation of circadian behaviors 1220 V. Thermal adaptation of the clock: evolutionary considerations 1223 VI. Light and temperature information for the clock function - synergic or individual? 1224 VII. Concluding remarks and future prospects 1225 Acknowledgements 1225 References 1225 SUMMARY: Plant growth and development is widely affected by diverse temperature conditions. Although studies have been focused mainly on the effects of stressful temperature extremes in recent decades, nonstressful ambient temperatures also influence an array of plant growth and morphogenic aspects, a process termed thermomorphogenesis. Notably, accumulating evidence indicates that both stressful and nonstressful temperatures modulate the functional process of the circadian clock, a molecular timer of biological rhythms in higher eukaryotes and photosynthetic prokaryotes. The circadian clock can sustain robust and precise timing over a range of physiological temperatures. Genes and molecular mechanisms governing the temperature compensation process have been explored in different plant species. In addition, a ZEITLUPE/HSP90-mediated protein quality control mechanism helps plants maintain the thermal stability of the clock under heat stress. The thermal adaptation capability and plasticity of the clock are of particular interest in view of the growing concern about global climate changes. Considering these circumstances in the field, we believe that it is timely to provide a provoking discussion on the current knowledge of temperature regulation of the clock function. The review also will discuss stimulating ideas on this topic along with ecosystem management and future agricultural innovation.
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Affiliation(s)
- Kyung-Eun Gil
- Department of Chemistry, Seoul National University, Seoul, 08826, Korea
| | - Chung-Mo Park
- Department of Chemistry, Seoul National University, Seoul, 08826, Korea
- Plant Genomics and Breeding Institute, Seoul National University, Seoul, 08826, Korea
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74
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Matsumura K, Ito R, Miyatake T. Pace-of-life: Relationships among locomotor activity, life history, and circadian rhythm in the assassin bug, Amphibolus venator. Ethology 2019. [DOI: 10.1111/eth.12831] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Kentarou Matsumura
- Laboratory of Evolutionary Ecology, Graduate School of Environmental and Life Science; Okayama University; Okayama Japan
| | - Ryohei Ito
- Laboratory of Evolutionary Ecology, Graduate School of Environmental and Life Science; Okayama University; Okayama Japan
| | - Takahisa Miyatake
- Laboratory of Evolutionary Ecology, Graduate School of Environmental and Life Science; Okayama University; Okayama Japan
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75
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Agathokleous E, Kitao M, Calabrese EJ. New insights into the role of melatonin in plants and animals. Chem Biol Interact 2018; 299:163-167. [PMID: 30553720 DOI: 10.1016/j.cbi.2018.12.008] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2018] [Revised: 12/05/2018] [Accepted: 12/12/2018] [Indexed: 12/15/2022]
Abstract
Melatonin is a hormone produced in animals by the pineal gland and in plants under stress. Melatonin research has expanded rapidly, affecting an impressive enhancement in the understanding of its functions in plants and animals. However, far less focus has been directed to clarifying the nature of melatonin dose-response relationships. Here, we provide substantial evidence of melatonin-induced biphasic dose-response relationships from a series of independent studies involving plant and animal models. The characteristics of these dose responses are similar to those of the broad toxicological and pharmacological hormesis literature. Our analysis suggests that melatonin, in coordination with the circadian rhythms, is involved in stress adaptive responses, and may act as a conditioning agent protecting organisms against subsequent health threats within an hormetic framework. Incorporation of melatonin-induced hormesis in research protocols has the potential to enhance the treatment of neuropsychiatric diseases, cancers, and other animal diseases, as well as protection against environmental stress and to increase plant productivity.
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Affiliation(s)
- Evgenios Agathokleous
- Hokkaido Research Center, Forestry and Forest Products Research Institute (FFPRI), Forest Research and Management Organization, 7 Hitsujigaoka, Sapporo, Hokkaido, 062-8516, Japan; Research Faculty of Agriculture, Hokkaido University, Kita 9 Nishi 9, Sapporo, Hokkaido, 060-8589, Japan.
| | - Mitsutoshi Kitao
- Research Faculty of Agriculture, Hokkaido University, Kita 9 Nishi 9, Sapporo, Hokkaido, 060-8589, Japan.
| | - Edward J Calabrese
- Department of Environmental Health Sciences, Morrill I, N344, University of Massachusetts, Amherst, MA, 01003, USA.
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76
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Yarkhunova Y, Guadagno CR, Rubin MJ, Davis SJ, Ewers BE, Weinig C. Circadian rhythms are associated with variation in photosystem II function and photoprotective mechanisms. PLANT, CELL & ENVIRONMENT 2018; 41:2518-2529. [PMID: 29664141 DOI: 10.1111/pce.13216] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2017] [Revised: 04/02/2018] [Accepted: 04/03/2018] [Indexed: 06/08/2023]
Abstract
The circadian clock regulates many aspects of leaf gas supply and biochemical demand for CO2 , and is hypothesized to improve plant performance. Yet the extent to which the clock may regulate the efficiency of photosystem II (PSII) and photoprotective mechanisms such as heat dissipation is less explored. Based on measurements of chlorophyll a fluorescence, we estimated the maximum efficiency of PSII in light (Fv'/Fm') and heat dissipation by nonphotochemical quenching (NPQ). We further dissected total NPQ into its main components, qE (pH-dependent quenching), qT (state-transition quenching), and qI (quenching related to photoinhibition), in clock mutant genotypes of Arabidopsis thaliana, the cognate wild-type genotypes, and a panel of recombinant inbred lines expressing quantitative variation in clock period. Compared with mutants with altered clock function, we observed that wild-type genotypes with clock period lengths of approximately 24 hr had both higher levels of Fv'/Fm', indicative of improved PSII function, and reduced NPQ, suggestive of lower stress on PSII light harvesting complexes. In the recombinant inbred lines, genetic variances were significant for Fv'/Fm' and all 3 components of NPQ, with qE explaining the greatest proportion of NPQ. Bivariate tests of association and structural equation models of hierarchical trait relationships showed that quantitative clock variation was empirically associated with Fv'/Fm' and NPQ, with qE mediating the relationship with gas exchange. The results demonstrate significant segregating variation for all photoprotective components, and suggest the adaptive significance of the clock may partly derive from its regulation of the light reactions of photosynthesis and of photoprotective mechanisms.
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Affiliation(s)
- Yulia Yarkhunova
- Department of Botany and Program in Ecology, University of Wyoming, Laramie, WY, 82071, USA
| | - Carmela R Guadagno
- Department of Botany and Program in Ecology, University of Wyoming, Laramie, WY, 82071, USA
| | - Matthew J Rubin
- Department of Biology, Syracuse University, Syracuse, NY, 13244, USA
| | - Seth J Davis
- Department of Biology, University of York, Heslington, York, YO10 5DD, UK
| | - Brent E Ewers
- Department of Botany and Program in Ecology, University of Wyoming, Laramie, WY, 82071, USA
| | - Cynthia Weinig
- Department of Botany and Program in Ecology, University of Wyoming, Laramie, WY, 82071, USA
- Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA
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77
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Jiang YD, Yuan X, Bai YL, Wang GY, Zhou WW, Zhu ZR. Knockdown of timeless Disrupts the Circadian Behavioral Rhythms in Laodelphax striatellus (Hemiptera: Delphacidae). ENVIRONMENTAL ENTOMOLOGY 2018; 47:1216-1225. [PMID: 30059997 DOI: 10.1093/ee/nvy095] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2018] [Indexed: 06/08/2023]
Abstract
Most living organisms developed the innate clock system to anticipate daily environmental changes and to enhance their chances of survival. timeless (tim) is a canonical clock gene. It has been extensively studied in Drosophila melanogaster (Diptera: Drosophilidae) as a key component of the endogenous circadian clock, but its role is largely unknown in some agriculture pests. Laodelphax striatellus (Fallén) (Hemiptera: Delphacidae), an important rice pest, exhibits a robust locomotor rhythm. In the present study, we cloned tim gene (ls-tim) from L. striatellus and investigated its function in the regulation of behavioral rhythms. Quantitative real-time polymerase chain reaction revealed a circadian expression pattern of ls-tim under different light conditions with a trough in the photophase and a peak in the late scotophase. After the knockdown of ls-tim via RNA interference (RNAi), the adults showed an earlier onset of locomotor activity under light/dark cycles and became arrhythmic in constant darkness. ls-tim RNAi also abolished the timing of adult emergence that normally occurs in the early photophase. These results suggest that ls-tim is essential for the light-entrained circadian rhythms in L. striatellus and provide more insights into the endogenous clock network underlying the behavioral and physiological rhythms of this insect.
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Affiliation(s)
- Yan-Dong Jiang
- State Key Laboratory of Rice Biology, Key Laboratory of Molecular Biology of Crop Pathogens and Insects, Ministry of Agriculture, Institute of Insect Sciences, Zhejiang University, Hangzhou, China
| | - Xin Yuan
- State Key Laboratory of Rice Biology, Key Laboratory of Molecular Biology of Crop Pathogens and Insects, Ministry of Agriculture, Institute of Insect Sciences, Zhejiang University, Hangzhou, China
| | - Yue-Liang Bai
- State Key Laboratory of Rice Biology, Key Laboratory of Molecular Biology of Crop Pathogens and Insects, Ministry of Agriculture, Institute of Insect Sciences, Zhejiang University, Hangzhou, China
| | - Gui-Yao Wang
- State Key Laboratory of Rice Biology, Key Laboratory of Molecular Biology of Crop Pathogens and Insects, Ministry of Agriculture, Institute of Insect Sciences, Zhejiang University, Hangzhou, China
| | - Wen-Wu Zhou
- State Key Laboratory of Rice Biology, Key Laboratory of Molecular Biology of Crop Pathogens and Insects, Ministry of Agriculture, Institute of Insect Sciences, Zhejiang University, Hangzhou, China
| | - Zeng-Rong Zhu
- State Key Laboratory of Rice Biology, Key Laboratory of Molecular Biology of Crop Pathogens and Insects, Ministry of Agriculture, Institute of Insect Sciences, Zhejiang University, Hangzhou, China
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Schneider P, Rund SSC, Smith NL, Prior KF, O'Donnell AJ, Reece SE. Adaptive periodicity in the infectivity of malaria gametocytes to mosquitoes. Proc Biol Sci 2018; 285:rspb.2018.1876. [PMID: 30282657 PMCID: PMC6191691 DOI: 10.1098/rspb.2018.1876] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2018] [Accepted: 09/06/2018] [Indexed: 12/18/2022] Open
Abstract
Daily rhythms in behaviour, physiology and molecular processes are expected to enable organisms to appropriately schedule activities according to consequences of the daily rotation of the Earth. For parasites, this includes capitalizing on periodicity in transmission opportunities and for hosts/vectors, this may select for rhythms in immune defence. We examine rhythms in the density and infectivity of transmission forms (gametocytes) of rodent malaria parasites in the host's blood, parasite development inside mosquito vectors and potential for onwards transmission. Furthermore, we simultaneously test whether mosquitoes exhibit rhythms in susceptibility. We reveal that at night, gametocytes are twice as infective, despite being less numerous in the blood. Enhanced infectiousness at night interacts with mosquito rhythms to increase sporozoite burdens fourfold when mosquitoes feed during their rest phase. Thus, changes in mosquito biting time (owing to bed nets) may render gametocytes less infective, but this is compensated for by the greater mosquito susceptibility.
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Affiliation(s)
- Petra Schneider
- Institute of Evolutionary Biology and Institute of Immunology and Infection Research, School of Biological Sciences, University of Edinburgh, Charlotte Auerbach Road, Edinburgh EH9 3FL, UK
| | - Samuel S. C. Rund
- Institute of Evolutionary Biology and Institute of Immunology and Infection Research, School of Biological Sciences, University of Edinburgh, Charlotte Auerbach Road, Edinburgh EH9 3FL, UK
- Department of Biological Sciences, University of Notre Dame, Notre Dame, IN, USA
| | - Natasha L. Smith
- Institute of Evolutionary Biology and Institute of Immunology and Infection Research, School of Biological Sciences, University of Edinburgh, Charlotte Auerbach Road, Edinburgh EH9 3FL, UK
| | - Kimberley F. Prior
- Institute of Evolutionary Biology and Institute of Immunology and Infection Research, School of Biological Sciences, University of Edinburgh, Charlotte Auerbach Road, Edinburgh EH9 3FL, UK
| | - Aidan J. O'Donnell
- Institute of Evolutionary Biology and Institute of Immunology and Infection Research, School of Biological Sciences, University of Edinburgh, Charlotte Auerbach Road, Edinburgh EH9 3FL, UK
| | - Sarah E. Reece
- Institute of Evolutionary Biology and Institute of Immunology and Infection Research, School of Biological Sciences, University of Edinburgh, Charlotte Auerbach Road, Edinburgh EH9 3FL, UK
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79
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Prokkola JM, Nikinmaa M. Circadian rhythms and environmental disturbances – underexplored interactions. J Exp Biol 2018; 221:221/16/jeb179267. [DOI: 10.1242/jeb.179267] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
ABSTRACT
Biological rhythms control the life of virtually all organisms, impacting numerous aspects ranging from subcellular processes to behaviour. Many studies have shown that changes in abiotic environmental conditions can disturb or entrain circadian (∼24 h) rhythms. These expected changes are so large that they could impose risks to the long-term viability of populations. Climate change is a major global stressor affecting the fitness of animals, partially because it challenges the adaptive associations between endogenous clocks and temperature – consequently, one can posit that a large-scale natural experiment on the plasticity of rhythm–temperature interactions is underway. Further risks are posed by chemical pollution and the depletion of oxygen levels in aquatic environments. Here, we focused our attention on fish, which are at heightened risk of being affected by human influence and are adapted to diverse environments showing predictable changes in light conditions, oxygen saturation and temperature. The examined literature to date suggests an abundance of mechanisms that can lead to interactions between responses to hypoxia, pollutants or pathogens and regulation of endogenous rhythms, but also reveals gaps in our understanding of the plasticity of endogenous rhythms in fish and in how these interactions may be disturbed by human influence and affect natural populations. Here, we summarize research on the molecular mechanisms behind environment–clock interactions as they relate to oxygen variability, temperature and responses to pollutants, and propose ways to address these interactions more conclusively in future studies.
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Affiliation(s)
- Jenni M. Prokkola
- Department of Biology, University of Turku, FI-20014 Turku, Finland
- Institute of Integrative Biology, University of Liverpool, Liverpool L69 7ZB, UK
| | - Mikko Nikinmaa
- Department of Biology, University of Turku, FI-20014 Turku, Finland
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80
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McClung CR. A fibre-optic pipeline lets the root circadian clock see the light. PLANT, CELL & ENVIRONMENT 2018; 41:1739-1741. [PMID: 29775487 DOI: 10.1111/pce.13343] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2018] [Accepted: 05/10/2018] [Indexed: 05/07/2023]
Abstract
This article comments on: Entrainment of Arabidopsis roots to the light:dark cycle by light piping.
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Affiliation(s)
- C Robertson McClung
- Department of Biological Sciences, Dartmouth College, Hanover, NH, 03755, USA
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81
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Henriques D, Wallberg A, Chávez-Galarza J, Johnston JS, Webster MT, Pinto MA. Whole genome SNP-associated signatures of local adaptation in honeybees of the Iberian Peninsula. Sci Rep 2018; 8:11145. [PMID: 30042407 PMCID: PMC6057950 DOI: 10.1038/s41598-018-29469-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2018] [Accepted: 07/06/2018] [Indexed: 12/25/2022] Open
Abstract
The availability of powerful high-throughput genomic tools, combined with genome scans, has helped identifying genes and genetic changes responsible for environmental adaptation in many organisms, including the honeybee. Here, we resequenced 87 whole genomes of the honeybee native to Iberia and used conceptually different selection methods (Samβada, LFMM, PCAdapt, iHs) together with in sillico protein modelling to search for selection footprints along environmental gradients. We found 670 outlier SNPs, most of which associated with precipitation, longitude and latitude. Over 88.7% SNPs laid outside exons and there was a significant enrichment in regions adjacent to exons and UTRs. Enrichment was also detected in exonic regions. Furthermore, in silico protein modelling suggests that several non-synonymous SNPs are likely direct targets of selection, as they lead to amino acid replacements in functionally important sites of proteins. We identified genomic signatures of local adaptation in 140 genes, many of which are putatively implicated in fitness-related functions such as reproduction, immunity, olfaction, lipid biosynthesis and circadian clock. Our genome scan suggests that local adaptation in the Iberian honeybee involves variations in regions that might alter patterns of gene expression and in protein-coding genes, which are promising candidates to underpin adaptive change in the honeybee.
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Affiliation(s)
- Dora Henriques
- Mountain Research Centre (CIMO), Polytechnic Institute of Bragança, Campus de Sta. Apolónia, 5300-253, Bragança, Portugal
- Centre of Molecular and Environmental Biology (CBMA), University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal
| | - Andreas Wallberg
- Department of Medical Biochemistry and Microbiology, Science for Life Laboratory, Uppsala University, SE -751 23, Uppsala, Sweden
| | - Julio Chávez-Galarza
- Mountain Research Centre (CIMO), Polytechnic Institute of Bragança, Campus de Sta. Apolónia, 5300-253, Bragança, Portugal
- Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, La Molina, Lima, Peru
| | - J Spencer Johnston
- Department of Entomology, Texas A&M University, College Station, TX, 77843-2475, USA
| | - Matthew T Webster
- Department of Medical Biochemistry and Microbiology, Science for Life Laboratory, Uppsala University, SE -751 23, Uppsala, Sweden
| | - M Alice Pinto
- Mountain Research Centre (CIMO), Polytechnic Institute of Bragança, Campus de Sta. Apolónia, 5300-253, Bragança, Portugal.
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82
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A large deletion within the clock gene
LNK2
contributed to the spread of tomato cultivation from Central America to Europe. Proc Natl Acad Sci U S A 2018; 115:6888-6890. [DOI: 10.1073/pnas.1808194115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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83
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James AB, Sullivan S, Nimmo HG. Global spatial analysis of Arabidopsis natural variants implicates 5'UTR splicing of LATE ELONGATED HYPOCOTYL in responses to temperature. PLANT, CELL & ENVIRONMENT 2018; 41. [PMID: 29520807 PMCID: PMC6033021 DOI: 10.1111/pce.13188] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/09/2023]
Abstract
How plants perceive and respond to temperature remains an important question in the plant sciences. Temperature perception and signal transduction may occur through temperature-sensitive intramolecular folding of primary mRNA transcripts. Recent studies suggested a role for retention of the first intron in the 5'UTR of the clock component LATE ELONGATED HYPOCOTYL (LHY) in response to changes in temperature. Here, we identified a set of haplotypes in the LHY 5'UTR, examined their global spatial distribution, and obtained evidence that haplotype can affect temperature-dependent splicing of LHY transcripts. Correlations of haplotype spatial distributions with global bioclimatic variables and altitude point to associations with annual mean temperature and temperature fluctuation. Relatively rare relict type accessions correlate with lower mean temperature and greater temperature fluctuation and the spatial distribution of other haplotypes may be informative of evolutionary processes driving colonization of ecosystems. We propose that haplotypes may possess distinct 5'UTR pre-mRNA folding thermodynamics and/or specific biological stabilities based around the binding of trans-acting RNA splicing factors, a consequence of which is scalable splicing sensitivity of a central clock component that is likely tuned to specific temperature environments.
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Affiliation(s)
- Allan B. James
- Institute of Molecular, Cell and Systems Biology, College of Medical, Veterinary and Life SciencesUniversity of GlasgowGlasgowG12 8QQUK
| | - Stuart Sullivan
- Institute of Molecular, Cell and Systems Biology, College of Medical, Veterinary and Life SciencesUniversity of GlasgowGlasgowG12 8QQUK
| | - Hugh G. Nimmo
- Institute of Molecular, Cell and Systems Biology, College of Medical, Veterinary and Life SciencesUniversity of GlasgowGlasgowG12 8QQUK
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84
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Thiem JD, Wooden IJ, Baumgartner LJ, Butler GL, Forbes J, Taylor MD, Watts RJ. Abiotic drivers of activity in a large, free-ranging, freshwater teleost, Murray cod (Maccullochella peelii). PLoS One 2018; 13:e0198972. [PMID: 29883481 PMCID: PMC5993306 DOI: 10.1371/journal.pone.0198972] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2018] [Accepted: 05/28/2018] [Indexed: 11/18/2022] Open
Abstract
The allocation of time and energy to different behaviours can impact survival and fitness, and ultimately influence population dynamics. Intrinsically, the rate at which animals expend energy is a key component in understanding how they interact with surrounding environments. Activity, derived through locomotion and basic metabolism, represents the principal energy cost for most animals, although it is rarely quantified in the field. We examined some abiotic drivers of variability in locomotor activity of a free-ranging freshwater predatory fish, Murray cod (Maccullochella peelii), for six months using tri-axial accelerometers. Murray cod (n = 20) occupied discrete river reaches and generally exhibited small-scale movements (<5 km). Activity was highest during crepuscular and nocturnal periods when water temperatures were warmest (19-30°C; January-March). As water temperatures cooled (9-21°C; April-June) Murray cod were active throughout the full diel cycle and dormant periods were rarely observed. Light level, water temperature and river discharge all had a significant, non-linear effect on activity. Activity peaked during low light levels, at water temperatures of ~20°C, and at discharge rates of ~400 ML d-1. The temporal changes observed in the behaviour of Murray cod likely reflect the complex interactions between physiological requirements and prey resource behaviour and availability in driving activity, and highlight the importance of empirical field data to inform bioenergetics models.
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Affiliation(s)
- Jason D. Thiem
- Department of Primary Industries, Narrandera Fisheries Centre, Narrandera, New South Wales, Australia
- Institute for Land, Water and Society, Charles Sturt University, Albury, New South Wales, Australia
- * E-mail:
| | - Ian J. Wooden
- Department of Primary Industries, Narrandera Fisheries Centre, Narrandera, New South Wales, Australia
| | - Lee J. Baumgartner
- Institute for Land, Water and Society, Charles Sturt University, Albury, New South Wales, Australia
| | - Gavin L. Butler
- Department of Primary Industries, Grafton Fisheries Centre, Grafton, New South Wales, Australia
| | - Jamin Forbes
- Institute for Land, Water and Society, Charles Sturt University, Albury, New South Wales, Australia
| | - Matthew D. Taylor
- Department of Primary Industries, Port Stephens Fisheries Institute, Taylors Beach, New South Wales, Australia
| | - Robyn J. Watts
- Institute for Land, Water and Society, Charles Sturt University, Albury, New South Wales, Australia
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85
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Carlson BM, Gross JB. Characterization and comparison of activity profiles exhibited by the cave and surface morphotypes of the blind Mexican tetra, Astyanax mexicanus. Comp Biochem Physiol C Toxicol Pharmacol 2018; 208:114-129. [PMID: 28823830 PMCID: PMC5817046 DOI: 10.1016/j.cbpc.2017.08.002] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/31/2017] [Revised: 08/07/2017] [Accepted: 08/14/2017] [Indexed: 01/06/2023]
Abstract
Departure from normal circadian rhythmicity and exposure to atypical lighting cues has been shown to adversely affect human health and wellness in a variety of ways. In contrast, adaptation to extreme environments has led many species to alter or even entirely abandon their reliance upon cyclic environmental inputs, principally daily cycles of light and darkness. The extreme darkness, stability and isolation of cave ecosystems has made cave-adapted species particularly attractive systems in which to study the consequences of life without light and the strategies that allow species to survive and even thrive in such environments. In order to further explore these questions, we have assessed the rhythmicity of locomotion in the blind Mexican tetra, Astyanax mexicanus, under controlled laboratory conditions. Using high-resolution video tracking assays, we characterized patterns in locomotor activity and spatial tank usage for members of the surface and Pachón cave populations. Here we demonstrate that cavefish have a higher overall level of activity and use the space within the trial tank differently than surface fish. Further, Pachón cavefish show circadian rhythmicity in both activity and spatial tank usage under a 12:12 light/dark cycle. We provide further evidence that these cavefish retain a weakly light-entrainable, endogenous circadian oscillator with limited capability to sustain rhythms in activity, but not spatial tank usage, in the absence of photic cues. Finally, we demonstrate a putative behavioral "masking effect" contributing to behavioral rhythms and provide evidence that exposure to constant darkness during development may alter behavioral patterns later in life.
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Affiliation(s)
- Brian M Carlson
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH 45221, USA.
| | - Joshua B Gross
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH 45221, USA.
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86
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Castrec J, Soudant P, Payton L, Tran D, Miner P, Lambert C, Le Goïc N, Huvet A, Quillien V, Boullot F, Amzil Z, Hégaret H, Fabioux C. Bioactive extracellular compounds produced by the dinoflagellate Alexandrium minutum are highly detrimental for oysters. AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2018; 199:188-198. [PMID: 29653309 DOI: 10.1016/j.aquatox.2018.03.034] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2018] [Revised: 03/27/2018] [Accepted: 03/28/2018] [Indexed: 06/08/2023]
Abstract
Blooms of the dinoflagellate Alexandrium spp., known as producers of paralytic shellfish toxins (PSTs), are regularly detected on the French coastline. PSTs accumulate into harvested shellfish species, such as the Pacific oyster Crassostrea gigas, and can cause strong disorders to consumers at high doses. The impacts of Alexandrium minutum on C. gigas have often been attributed to its production of PSTs without testing separately the effects of the bioactive extracellular compounds (BECs) with allelopathic, hemolytic, cytotoxic or ichthyotoxic properties, which can also be produced by these algae. The BECs, still uncharacterized, are excreted within the environment thereby impacting not only phytoplankton, zooplankton but also marine invertebrates and fishes, without implicating any PST. The aim of this work was to compare the effects of three strains of A. minutum producing either only PSTs, only BECs, or both PSTs and BECs, on the oyster C. gigas. Behavioral and physiological responses of oysters exposed during 4 days were monitored and showed contrasted behavioral and physiological responses in oysters supposedly depending on produced bioactive substances. The non-PST extracellular-compound-producing strain primarily strongly modified valve-activity behavior of C. gigas and induced hemocyte mobilization within the gills, whereas the PST-producing strain caused inflammatory responses within the digestive gland and disrupted the daily biological rhythm of valve activity behavior. BECs may therefore have a significant harmful effect on the gills, which is one of the first organ in contact with the extracellular substances released in the water by A. minutum. Conversely, the PSTs impact the digestive gland, where they are released and mainly accumulated, after degradation of algal cells during digestion process of bivalves. This study provides a better understanding of the toxicity of A. minutum on oyster and highlights the significant role of BECs in this toxicity calling for further chemical characterization of these substances.
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Affiliation(s)
- J Castrec
- LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, IUEM, rue Dumont d'Urville, 29280 Plouzané, France.
| | - P Soudant
- LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, IUEM, rue Dumont d'Urville, 29280 Plouzané, France
| | - L Payton
- CNRS, EPOC, UMR 5805, F-33120 Arcachon, France
| | - D Tran
- CNRS, EPOC, UMR 5805, F-33120 Arcachon, France
| | - P Miner
- Ifremer, LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, Centre de Bretagne, CS 10070, 29280 Plouzané, France
| | - C Lambert
- LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, IUEM, rue Dumont d'Urville, 29280 Plouzané, France
| | - N Le Goïc
- LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, IUEM, rue Dumont d'Urville, 29280 Plouzané, France
| | - A Huvet
- Ifremer, LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, Centre de Bretagne, CS 10070, 29280 Plouzané, France
| | - V Quillien
- Ifremer, LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, Centre de Bretagne, CS 10070, 29280 Plouzané, France
| | - F Boullot
- LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, IUEM, rue Dumont d'Urville, 29280 Plouzané, France
| | - Z Amzil
- Ifremer, Laboratoire Phycotoxines, BP 21105, F-44311 Nantes, France
| | - H Hégaret
- LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, IUEM, rue Dumont d'Urville, 29280 Plouzané, France
| | - C Fabioux
- LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, IUEM, rue Dumont d'Urville, 29280 Plouzané, France
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87
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Dominoni DM, Åkesson S, Klaassen R, Spoelstra K, Bulla M. Methods in field chronobiology. Philos Trans R Soc Lond B Biol Sci 2018; 372:rstb.2016.0247. [PMID: 28993491 DOI: 10.1098/rstb.2016.0247] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/08/2017] [Indexed: 11/12/2022] Open
Abstract
Chronobiological research has seen a continuous development of novel approaches and techniques to measure rhythmicity at different levels of biological organization from locomotor activity (e.g. migratory restlessness) to physiology (e.g. temperature and hormone rhythms, and relatively recently also in genes, proteins and metabolites). However, the methodological advancements in this field have been mostly and sometimes exclusively used only in indoor laboratory settings. In parallel, there has been an unprecedented and rapid improvement in our ability to track animals and their behaviour in the wild. However, while the spatial analysis of tracking data is widespread, its temporal aspect is largely unexplored. Here, we review the tools that are available or have potential to record rhythms in the wild animals with emphasis on currently overlooked approaches and monitoring systems. We then demonstrate, in three question-driven case studies, how the integration of traditional and newer approaches can help answer novel chronobiological questions in free-living animals. Finally, we highlight unresolved issues in field chronobiology that may benefit from technological development in the future. As most of the studies in the field are descriptive, the future challenge lies in applying the diverse technologies to experimental set-ups in the wild.This article is part of the themed issue 'Wild clocks: integrating chronobiology and ecology to understand timekeeping in free-living animals'.
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Affiliation(s)
- Davide M Dominoni
- Department of Animal Ecology, Netherlands Institute of Ecology, PO Box 50, 6700 AB, Wageningen, The Netherlands .,Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, Glasgow G128QQ, UK
| | - Susanne Åkesson
- Centre for Animal Movement Research, Department of Biology, Lund University, Lund 22362, Sweden
| | - Raymond Klaassen
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen 9747 AG, The Netherlands
| | - Kamiel Spoelstra
- Department of Animal Ecology, Netherlands Institute of Ecology, PO Box 50, 6700 AB, Wageningen, The Netherlands
| | - Martin Bulla
- Department of Behavioural Ecology and Evolutionary Genetics, Max Planck Institute for Ornithology, Seewiesen 82319, Germany.,NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems, Utrecht University, PO Box 59, 1790 AB Den Burg, The Netherlands.,Faculty of Environmental Sciences, Czech University of Life Sciences Prague, Prague 16521, Czech Republic
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88
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Bloch G, Bar-Shai N, Cytter Y, Green R. Time is honey: circadian clocks of bees and flowers and how their interactions may influence ecological communities. Philos Trans R Soc Lond B Biol Sci 2018; 372:rstb.2016.0256. [PMID: 28993499 DOI: 10.1098/rstb.2016.0256] [Citation(s) in RCA: 50] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/31/2017] [Indexed: 12/28/2022] Open
Abstract
The interactions between flowering plants and insect pollinators shape ecological communities and provide one of the best examples of coevolution. Although these interactions have received much attention in both ecology and evolution, their temporal aspects are little explored. Here we review studies on the circadian organization of pollination-related traits in bees and flowers. Research, mostly with the honeybee, Apis mellifera, has implicated the circadian clock in key aspects of their foraging for flower rewards. These include anticipation, timing of visits to flowers at specified locations and time-compensated sun-compass orientation. Floral rhythms in traits such as petal opening, scent release and reward availability also show robust daily rhythms. However, in only few studies was it possible to adequately determine whether these oscillations are driven by external time givers such as light and temperature cycles, or endogenous circadian clocks. The interplay between the timing of flower and pollinator rhythms may be ecologically significant. Circadian regulation of pollination-related traits in only few species may influence the entire pollination network and thus affect community structure and local biodiversity. We speculate that these intricate chronobiological interactions may be vulnerable to anthropogenic effects such as the introduction of alien invasive species, pesticides or environmental pollutants.This article is part of the themed issue 'Wild clocks: integrating chronobiology and ecology to understand timekeeping in free-living animals'.
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Affiliation(s)
- Guy Bloch
- Department of Ecology, Evolution, and Behavior, The A. Silberman Institute of Life Sciences, Hebrew University, Jerusalem 91904, Israel
| | - Noam Bar-Shai
- Department of Ecology, Evolution, and Behavior, The A. Silberman Institute of Life Sciences, Hebrew University, Jerusalem 91904, Israel.,Jerusalem Botanical Gardens, Hebrew University, Givat-Ram, Jerusalem 91904, Israel
| | - Yotam Cytter
- Department of Plant and Environmental Sciences, The A. Silberman Institute of Life Sciences, Hebrew University, Jerusalem 91904, Israel
| | - Rachel Green
- Department of Plant and Environmental Sciences, The A. Silberman Institute of Life Sciences, Hebrew University, Jerusalem 91904, Israel
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89
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Salmela MJ, McMinn RL, Guadagno CR, Ewers BE, Weinig C. Circadian Rhythms and Reproductive Phenology Covary in a Natural Plant Population. J Biol Rhythms 2018; 33:245-254. [DOI: 10.1177/0748730418764525] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Affiliation(s)
| | - Robby L. McMinn
- Department of Botany, University of Wyoming, Laramie, Wyoming
- Program in Ecology, University of Wyoming, Laramie, Wyoming
| | | | - Brent E. Ewers
- Department of Botany, University of Wyoming, Laramie, Wyoming
- Program in Ecology, University of Wyoming, Laramie, Wyoming
| | - Cynthia Weinig
- Department of Botany, University of Wyoming, Laramie, Wyoming
- Program in Ecology, University of Wyoming, Laramie, Wyoming
- Department of Molecular Biology, University of Wyoming, Laramie, Wyoming
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90
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Galeou A, Roussis A, Prombona A. Investigation of the Phaseolus vulgaris circadian clock and the repressive role of the PvTOC1 factor by a newly established in vitro system. JOURNAL OF PLANT PHYSIOLOGY 2018; 222:79-85. [PMID: 29407552 DOI: 10.1016/j.jplph.2017.12.018] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2017] [Revised: 11/01/2017] [Accepted: 12/15/2017] [Indexed: 06/07/2023]
Abstract
The circadian clock is crucial for the synchronization of an organism's physiology and metabolism with the geophysical time. In plants, previous work on the common bean (Phaseolus vulgaris) has identified various differing aspects of clock function compared to the widely studied Arabidopsis thaliana clock. However, transformation of legumes for the study of the circadian clock regulatory mechanisms is extremely laborious. In the present work, we describe an easy-to-follow and rapid method of preparing bean leaf protoplasts with high transformation potential and a functional circadian clock. In this system, we show that application of trichostatin A differentially changes the expression levels of several clock genes. More importantly, we investigate the effect of the clock protein PvTOC1 (Phaseolus vulgaris TIMING OF CAB EXPRESSION 1) on the activity of bean circadian promoters. We present new evidence on the function of PvTOC1 as a repressor of the promoter activity of its own gene, mediated by its conserved CCT (CONSTANS, CO-LIKE and TOC1) domain. Using our protoplast system we were able to uncover functions of the bean circadian clock and to identify an additional target of the PvTOC1clock transcription factor, not previously reported.
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Affiliation(s)
- Angeliki Galeou
- National Centre for Scientific Research "DEMOKRITOS", Institute of Biosciences and Applications, Patr. Grigoriou E' & 27 Neapoleos str., 153 41, Agia Paraskevi, Greece; National and Kapodistrian University of Athens, Faculty of Biology, Department of Botany, 15784 Athens, Greece
| | - Andreas Roussis
- National and Kapodistrian University of Athens, Faculty of Biology, Department of Botany, 15784 Athens, Greece
| | - Anastasia Prombona
- National Centre for Scientific Research "DEMOKRITOS", Institute of Biosciences and Applications, Patr. Grigoriou E' & 27 Neapoleos str., 153 41, Agia Paraskevi, Greece.
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91
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Larrondo LF, Canessa P. The Clock Keeps on Ticking: Emerging Roles for Circadian Regulation in the Control of Fungal Physiology and Pathogenesis. Curr Top Microbiol Immunol 2018; 422:121-156. [PMID: 30255278 DOI: 10.1007/82_2018_143] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Tic-tac, tic-tac, the sound of time is familiar to us, yet, it also silently shapes daily biological processes conferring 24-hour rhythms in, among others, cellular and systemic signaling, gene expression, and metabolism. Indeed, circadian clocks are molecular machines that permit temporal control of a variety of processes in individuals, with a close to 24-hour period, optimizing cellular dynamics in synchrony with daily environmental cycles. For over three decades, the molecular bases of these clocks have been extensively described in the filamentous fungus Neurospora crassa, yet, there have been few molecular studies in fungi other than Neurospora, despite evidence of rhythmic phenomena in many fungal species, including pathogenic ones. This chapter will revise the mechanisms underlying clock regulation in the model fungus N. crassa, as well as recent findings obtained in several fungi. In particular, this chapter will review the effect of circadian regulation of virulence and organismal interactions, focusing on the phytopathogen Botrytis cinerea, as well as several entomopathogenic fungi, including the behavior-manipulating species Ophiocordyceps kimflemingiae and Entomophthora muscae. Finally, this review will comment current efforts in the study of mammalian pathogenic fungi, while highlighting recent circadian lessons from parasites such as Trypanosoma and Plasmodium. The clock keeps on ticking, whether we can hear it or not.
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Affiliation(s)
- Luis F Larrondo
- Millennium Institute for Integrative Biology (iBio), Santiago, Chile. .,Departamento de Genética Molecular y Microbiología, Facultad de Ciencias Biológicas, Pontificia Universidad Católica de Chile, Santiago, Chile.
| | - Paulo Canessa
- Millennium Institute for Integrative Biology (iBio), Santiago, Chile.,Facultad de Ciencias de la Vida, Centro de Biotecnologia Vegetal, Universidad Andres Bello, Santiago, Chile
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92
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Desai JS, Slabaugh E, Liebelt DJ, Fredenberg JD, Gray BN, Jagadish SVK, Wilkins O, Doherty CJ. Neural Net Classification Combined With Movement Analysis to Evaluate Setaria viridis as a Model System for Time of Day of Anther Appearance. FRONTIERS IN PLANT SCIENCE 2018; 9:1585. [PMID: 30429868 PMCID: PMC6220418 DOI: 10.3389/fpls.2018.01585] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2018] [Accepted: 10/11/2018] [Indexed: 05/13/2023]
Abstract
In many plant species, the time of day at which flowers open to permit pollination is tightly regulated. Proper time of flower opening, or Time of Day of Anther Appearance (TAA), may coordinate flowering opening with pollinator activity or may shift temperature sensitive developmental processes to cooler times of the day. The genetic mechanisms that regulate the timing of this process in cereal crops are unknown. To address this knowledge gap, it is necessary to establish a monocot model system that exhibits variation in TAA. Here, we examine the suitability of Setaria viridis, the model for C4 photosynthesis, for such a role. We developed an imaging system to monitor the temporal regulation of growth, flower opening time, and other physiological characteristics in Setaria. This system enabled us to compare Setaria varieties Ames 32254, Ames 32276, and PI 669942 variation in growth and daily flower opening time. We observed that TAA occurs primarily at night in these three Setaria accessions. However, significant variation between the accessions was observed for both the ratio of flowers that open in the day vs. night and the specific time of day where the rate is maximal. Characterizing this physiological variation is a requisite step toward uncovering the molecular mechanisms regulating TAA. Leveraging the regulation of TAA could provide researchers with a genetic tool to improve crop productivity in new environments.
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Affiliation(s)
- Jigar S. Desai
- Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC, United States
| | - Erin Slabaugh
- Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC, United States
| | - Donna J. Liebelt
- Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC, United States
| | - Jacob D. Fredenberg
- Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC, United States
| | | | | | - Olivia Wilkins
- Department of Plant Science, McGill University, Sainte-Anne-de-Bellevue, QC, Canada
| | - Colleen J. Doherty
- Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC, United States
- *Correspondence: Colleen J. Doherty
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93
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Niepoth N, Ke G, de Roode JC, Groot AT. Comparing Behavior and Clock Gene Expression between Caterpillars, Butterflies, and Moths. J Biol Rhythms 2017; 33:52-64. [DOI: 10.1177/0748730417746458] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Natalie Niepoth
- *Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
- Department of Ecology, Evolution, and Environmental Biology, Columbia University, New York, NY, USA
| | - Gao Ke
- *Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
| | - Jacobus C. de Roode
- *Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
- Department of Biology, O. Wayne Rollins Research Center, Emory University, Atlanta, GA, USA
| | - Astrid T. Groot
- *Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
- Department of Entomology, Max Planck Institute for Chemical Ecology, Jena, Germany
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94
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Pagon N, Grignolio S, Brivio F, Marcon A, Apollonio M. Territorial behaviour of male roe deer: a telemetry study of spatial behaviour and activity levels. FOLIA ZOOLOGICA 2017. [DOI: 10.25225/fozo.v66.i4.a9.2017] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Nives Pagon
- University of Sassari, Department of Veterinary Medicine, Via Vienna 2, I-07100 Sassari, Italy; e-mail:
- Slovenia Forest Service, Večna pot 2, Sl-1000 Ljubljana, Slovenia
| | - Stefano Grignolio
- University of Sassari, Department of Veterinary Medicine, Via Vienna 2, I-07100 Sassari, Italy; e-mail:
| | - Francesca Brivio
- University of Sassari, Department of Veterinary Medicine, Via Vienna 2, I-07100 Sassari, Italy; e-mail:
| | - Andrea Marcon
- University of Sassari, Department of Veterinary Medicine, Via Vienna 2, I-07100 Sassari, Italy; e-mail:
| | - Marco Apollonio
- University of Sassari, Department of Veterinary Medicine, Via Vienna 2, I-07100 Sassari, Italy; e-mail:
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95
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Helm B, Visser ME, Schwartz W, Kronfeld-Schor N, Gerkema M, Piersma T, Bloch G. Two sides of a coin: ecological and chronobiological perspectives of timing in the wild. Philos Trans R Soc Lond B Biol Sci 2017; 372:20160246. [PMID: 28993490 PMCID: PMC5647273 DOI: 10.1098/rstb.2016.0246] [Citation(s) in RCA: 80] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/20/2017] [Indexed: 12/19/2022] Open
Abstract
Most processes within organisms, and most interactions between organisms and their environment, have distinct time profiles. The temporal coordination of such processes is crucial across levels of biological organization, but disciplines differ widely in their approaches to study timing. Such differences are accentuated between ecologists, who are centrally concerned with a holistic view of an organism in relation to its external environment, and chronobiologists, who emphasize internal timekeeping within an organism and the mechanisms of its adjustment to the environment. We argue that ecological and chronobiological perspectives are complementary, and that studies at the intersection will enable both fields to jointly overcome obstacles that currently hinder progress. However, to achieve this integration, we first have to cross some conceptual barriers, clarifying prohibitively inaccessible terminologies. We critically assess main assumptions and concepts in either field, as well as their common interests. Both approaches intersect in their need to understand the extent and regulation of temporal plasticity, and in the concept of 'chronotype', i.e. the characteristic temporal properties of individuals which are the targets of natural and sexual selection. We then highlight promising developments, point out open questions, acknowledge difficulties and propose directions for further integration of ecological and chronobiological perspectives through Wild Clock research.This article is part of the themed issue 'Wild Clocks: integrating chronobiology and ecology to understand timekeeping in free-living animals'.
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Affiliation(s)
- Barbara Helm
- Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, Graham Kerr Building, Glasgow G128QQ, UK
| | - Marcel E Visser
- Department of Animal Ecology, Netherlands Institute of Ecology (NIOO-KNAW), PO 50, 6700 AB Wageningen, The Netherlands
| | - William Schwartz
- Department of Neurology, University of Massachusetts Medical School, 55 Lake Avenue North, Worcester, MA, USA
| | | | - Menno Gerkema
- Chronobiology, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Groningen, The Netherlands
| | - Theunis Piersma
- NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems and Utrecht University, 1790 AB Den Burg, Texel, The Netherlands
- Conservation Ecology Group, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Groningen, The Netherlands
| | - Guy Bloch
- Department of Ecology, Evolution, and Behavior, The A. Silberman Institute of Life Sciences, Hebrew University, Jerusalem 91904, Israel
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96
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Berry SE, Gilchrist J, Merritt DJ. Homeostatic and circadian mechanisms of bioluminescence regulation differ between a forest and a facultative cave species of glowworm, Arachnocampa. JOURNAL OF INSECT PHYSIOLOGY 2017; 103:1-9. [PMID: 28899751 DOI: 10.1016/j.jinsphys.2017.09.005] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2017] [Revised: 09/01/2017] [Accepted: 09/08/2017] [Indexed: 06/07/2023]
Abstract
Glowworms, members of the keroplatid fly genus, Arachnocampa, glow to attract prey. Here we describe substantial differences in the bioluminescence regulatory systems of two species; one is a troglophile with populations both in caves and outside of caves in wet forest (Arachnocampa tasmaniensis) and the other has no known cave populations (Arachnocampa flava). We find that A. tasmaniensis is ready to initiate bioluminescence at any time darkness is encountered. In contrast, A. flava shows a homeostatic control of bioluminescence; it is unlikely to initiate bioluminescence when exposed to dark pulses during the photophase and it does so with a long latency. Another difference between the two species is that A. tasmaniensis individuals synchronize their bioluminescence in the dark zone of caves under the control of the circadian system and A. flava individuals do not synchronize to each other, rather their circadian control system entrains to the light:dark cycle to promote nocturnal bioluminescence. Consequently, we produced a phase-response curve in response to photic entrainment under constant darkness for both species. The shape of the phase-response curves differs between the two species as does the overall sensitivity to the identical entrainment conditions. The phase-response curve of A. tasmaniensis facilitates synchronization whereas that of A. flava facilitates nocturnal glowing. The two-species comparison highlights possible pathways of divergence of circadian control of physiological functions that could be associated with the extreme ecological differences experienced in cave and surface habitats.
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Affiliation(s)
- Sarah E Berry
- College of Science and Engineering, James Cook University, Townsville, QLD 4811, Australia,.
| | - Joshua Gilchrist
- Queensland Brain Institute, The University of Queensland, Brisbane, Queensland 4072, Australia.
| | - David J Merritt
- School of Biological Sciences, The University of Queensland, Brisbane, Queensland 4072, Australia.
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97
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The plant circadian clock influences rhizosphere community structure and function. ISME JOURNAL 2017; 12:400-410. [PMID: 29053146 PMCID: PMC5776454 DOI: 10.1038/ismej.2017.172] [Citation(s) in RCA: 59] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2017] [Revised: 08/02/2017] [Accepted: 08/09/2017] [Indexed: 01/22/2023]
Abstract
Plants alter chemical and physical properties of soil, and thereby influence rhizosphere microbial community structure. The structure of microbial communities may in turn affect plant performance. Yet, outside of simple systems with pairwise interacting partners, the plant genetic pathways that influence microbial community structure remain largely unknown, as are the performance feedbacks of microbial communities selected by the host plant genotype. We investigated the role of the plant circadian clock in shaping rhizosphere community structure and function. We performed 16S ribosomal RNA gene sequencing to characterize rhizosphere bacterial communities of Arabidopsis thaliana between day and night time points, and tested for differences in community structure between wild-type (Ws) vs clock mutant (toc1-21, ztl-30) genotypes. We then characterized microbial community function, by growing wild-type plants in soils with an overstory history of Ws, toc1-21 or ztl-30 and measuring plant performance. We observed that rhizosphere community structure varied between day and night time points, and clock misfunction significantly altered rhizosphere communities. Finally, wild-type plants germinated earlier and were larger when inoculated with soils having an overstory history of wild-type in comparison with clock mutant genotypes. Our findings suggest the circadian clock of the plant host influences rhizosphere community structure and function.
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98
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Linde A, Eklund DM, Kubota A, Pederson ERA, Holm K, Gyllenstrand N, Nishihama R, Cronberg N, Muranaka T, Oyama T, Kohchi T, Lagercrantz U. Early evolution of the land plant circadian clock. THE NEW PHYTOLOGIST 2017; 216:576-590. [PMID: 28244104 PMCID: PMC5638080 DOI: 10.1111/nph.14487] [Citation(s) in RCA: 59] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2016] [Accepted: 01/18/2017] [Indexed: 05/21/2023]
Abstract
While angiosperm clocks can be described as an intricate network of interlocked transcriptional feedback loops, clocks of green algae have been modelled as a loop of only two genes. To investigate the transition from a simple clock in algae to a complex one in angiosperms, we performed an inventory of circadian clock genes in bryophytes and charophytes. Additionally, we performed functional characterization of putative core clock genes in the liverwort Marchantia polymorpha and the hornwort Anthoceros agrestis. Phylogenetic construction was combined with studies of spatiotemporal expression patterns and analysis of M. polymorpha clock gene mutants. Homologues to core clock genes identified in Arabidopsis were found not only in bryophytes but also in charophytes, albeit in fewer copies. Circadian rhythms were detected for most identified genes in M. polymorpha and A. agrestis, and mutant analysis supports a role for putative clock genes in M. polymorpha. Our data are in line with a recent hypothesis that adaptation to terrestrial life occurred earlier than previously expected in the evolutionary history of charophyte algae. Both gene duplication and acquisition of new genes was important in the evolution of the plant circadian clock, but gene loss has also contributed to shaping the clock of bryophytes.
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Affiliation(s)
- Anna‐Malin Linde
- Department of Plant Ecology and EvolutionEvolutionary Biology CentreUppsala UniversityNorbyvägen 18DSE‐75236UppsalaSweden
- The Linnean Centre for Plant Biology in UppsalaUppsalaSweden
| | - D. Magnus Eklund
- Department of Plant Ecology and EvolutionEvolutionary Biology CentreUppsala UniversityNorbyvägen 18DSE‐75236UppsalaSweden
- The Linnean Centre for Plant Biology in UppsalaUppsalaSweden
| | - Akane Kubota
- Graduate School of BiostudiesKyoto UniversityKyoto606‐8502Japan
| | - Eric R. A. Pederson
- Department of Plant Ecology and EvolutionEvolutionary Biology CentreUppsala UniversityNorbyvägen 18DSE‐75236UppsalaSweden
- The Linnean Centre for Plant Biology in UppsalaUppsalaSweden
| | - Karl Holm
- Department of Plant Ecology and EvolutionEvolutionary Biology CentreUppsala UniversityNorbyvägen 18DSE‐75236UppsalaSweden
- The Linnean Centre for Plant Biology in UppsalaUppsalaSweden
| | - Niclas Gyllenstrand
- Department of Plant Ecology and EvolutionEvolutionary Biology CentreUppsala UniversityNorbyvägen 18DSE‐75236UppsalaSweden
- The Linnean Centre for Plant Biology in UppsalaUppsalaSweden
| | | | - Nils Cronberg
- Department of BiologyLund UniversityEcology BuildingSE‐22362LundSweden
| | | | - Tokitaka Oyama
- Graduate School of ScienceKyoto UniversityKyoto606‐8502Japan
| | - Takayuki Kohchi
- Graduate School of BiostudiesKyoto UniversityKyoto606‐8502Japan
| | - Ulf Lagercrantz
- Department of Plant Ecology and EvolutionEvolutionary Biology CentreUppsala UniversityNorbyvägen 18DSE‐75236UppsalaSweden
- The Linnean Centre for Plant Biology in UppsalaUppsalaSweden
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99
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Joo Y, Fragoso V, Yon F, Baldwin IT, Kim SG. Circadian clock component, LHY, tells a plant when to respond photosynthetically to light in nature. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2017; 59:572-587. [PMID: 28429400 DOI: 10.1111/jipb.12547] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2017] [Accepted: 04/18/2017] [Indexed: 05/14/2023]
Abstract
The circadian clock is known to increase plant growth and fitness, and is thought to prepare plants for photosynthesis at dawn and dusk; whether this happens in nature was unknown. We transformed the native tobacco, Nicotiana attenuata to silence two core clock components, NaLHY (irLHY) and NaTOC1 (irTOC1). We characterized growth and light- and dark-adapted photosynthetic rates (Ac ) throughout a 24 h day in empty vector-transformed (EV), irLHY, and irTOC1 plants in the field, and in NaPhyA- and NaPhyB1-silenced plants in the glasshouse. The growth rates of irLHY plants were lower than those of EV plants in the field. While irLHY plants reduced Ac earlier at dusk, no differences between irLHY and EV plants were observed at dawn in the field. irLHY, but not EV plants, responded to light in the night by rapidly increasing Ac . Under controlled conditions, EV plants rapidly increased Ac in the day compared to dark-adapted plants at night; irLHY plants lost these time-dependent responses. The role of NaLHY in gating photosynthesis is independent of the light-dependent reactions and red light perceived by NaPhyA, but not NaPhyB1. In summary, the circadian clock allows plants not to respond photosynthetically to light at night by anticipating and gating red light-mediated in native tobacco.
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Affiliation(s)
- Youngsung Joo
- Department of Molecular Ecology, Max Planck Institute for Chemical Ecology, Hans-Knöll-Straße 8, D-07745 Jena, Germany
| | - Variluska Fragoso
- Department of Molecular Ecology, Max Planck Institute for Chemical Ecology, Hans-Knöll-Straße 8, D-07745 Jena, Germany
| | - Felipe Yon
- Department of Molecular Ecology, Max Planck Institute for Chemical Ecology, Hans-Knöll-Straße 8, D-07745 Jena, Germany
| | - Ian T Baldwin
- Department of Molecular Ecology, Max Planck Institute for Chemical Ecology, Hans-Knöll-Straße 8, D-07745 Jena, Germany
| | - Sang-Gyu Kim
- Department of Molecular Ecology, Max Planck Institute for Chemical Ecology, Hans-Knöll-Straße 8, D-07745 Jena, Germany
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100
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Payton L, Perrigault M, Bourdineaud JP, Marcel A, Massabuau JC, Tran D. Trojan Horse Strategy for Non-invasive Interference of Clock Gene in the Oyster Crassostrea gigas. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2017; 19:361-371. [PMID: 28674930 DOI: 10.1007/s10126-017-9761-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2016] [Accepted: 05/08/2017] [Indexed: 06/07/2023]
Abstract
RNA interference is a powerful method to inhibit specific gene expression. Recently, silencing target genes by feeding has been successfully carried out in nematodes, insects, and small aquatic organisms. A non-invasive feeding-based RNA interference is reported here for the first time in a mollusk bivalve, the pacific oyster Crassostrea gigas. In this Trojan horse strategy, the unicellular alga Heterocapsa triquetra is the food supply used as a vector to feed oysters with Escherichia coli strain HT115 engineered to express the double-stranded RNA targeting gene. To test the efficacy of the method, the Clock gene, a central gene of the circadian clock, was targeted for knockout. Results demonstrated specific and systemic efficiency of the Trojan horse strategy in reducing Clock mRNA abundance. Consequences of Clock disruption were observed in Clock-related genes (Bmal, Tim1, Per, Cry1, Cry2, Rev.-erb, and Ror) and triploid oysters were more sensitive than diploid to the interference. This non-invasive approach shows an involvement of the circadian clock in oyster bioaccumulation of toxins produced by the harmful alga Alexandrium minutum.
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Affiliation(s)
- Laura Payton
- EPOC, UMR 5805, University of Bordeaux, F-33120, Arcachon, France
- CNRS, EPOC, UMR 5805, Place du Dr Peyneau, 33120, Arcachon, France
| | - Mickael Perrigault
- EPOC, UMR 5805, University of Bordeaux, F-33120, Arcachon, France
- CNRS, EPOC, UMR 5805, Place du Dr Peyneau, 33120, Arcachon, France
| | - Jean-Paul Bourdineaud
- CNRS, UMR 5234, Fundamental Microbiology and Pathogenicity Laboratory, European Institute of Chemistry and Biology, University of Bordeaux, 2, rue Robert Escarpit, 33607, Pessac, France
| | - Anjara Marcel
- EPOC, UMR 5805, University of Bordeaux, F-33120, Arcachon, France
| | - Jean-Charles Massabuau
- EPOC, UMR 5805, University of Bordeaux, F-33120, Arcachon, France
- CNRS, EPOC, UMR 5805, Place du Dr Peyneau, 33120, Arcachon, France
| | - Damien Tran
- EPOC, UMR 5805, University of Bordeaux, F-33120, Arcachon, France.
- CNRS, EPOC, UMR 5805, Place du Dr Peyneau, 33120, Arcachon, France.
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