Decoding Gene Networks Modules That Explain the Recovery of Hymenoglossum cruentum Cav. After Extreme Desiccation

Ostria-Gallardo, Enrique; Larama, Giovanni; Berríos, Graciela; Fallard, Ana; Gutiérrez-Moraga, Ana; Ensminger, Ingo; Manque, Patrício; Bascuñán‐Godoy, Luisa; Bravo, León A.

doi:10.3389/fpls.2020.00574

Cited by 7 publications

(4 citation statements)

References 74 publications

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“…According to our WGCNA analysis, light-harvesting chlorophyll a/b binding proteins LHCP and LHCA4 were the hub genes in the co-expression network ( Figure 4 C, Table 1 ). Although many studies have discussed the role of photosynthesis and photosynthesis-antenna proteins in drought–rewatering [ 21 , 56 , 57 ], there are also studies highlighting the important roles of PSI/II-related and LHC-encoding genes on plant development (such as plant height, biomass, etc.) [ 58 , 59 ], but few studies have illustrated the role of PSI/II-related and LHC-encoding genes in plant tiller development.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome-Based Weighted Gene Co-Expression Network Analysis Reveals the Photosynthesis Pathway and Hub Genes Involved in Promoting Tiller Growth under Repeated Drought–Rewatering Cycles in Perennial Ryegrass

Ding,

Zhang,

et al. 2024

Plants

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Drought stress, which often occurs repeatedly across the world, can cause multiple and long-term effects on plant growth. However, the repeated drought–rewatering effects on plant growth remain uncertain. This study was conducted to determine the effects of drought–rewatering cycles on aboveground growth and explore the underlying mechanisms. Perennial ryegrass plants were subjected to three watering regimes: well-watered control (W), two cycles of drought–rewatering (D2R), and one cycle of drought–rewatering (D1R). The results indicated that the D2R treatment increased the tiller number by 40.9% and accumulated 28.3% more aboveground biomass compared with W; whereas the D1R treatment reduced the tiller number by 23.9% and biomass by 42.2% compared to the W treatment. A time-course transcriptome analysis was performed using crown tissues obtained from plants under D2R and W treatments at 14, 17, 30, and 33 days (d). A total number of 2272 differentially expressed genes (DEGs) were identified. In addition, an in-depth weighted gene co-expression network analysis (WGCNA) was carried out to investigate the relationship between RNA-seq data and tiller number. The results indicated that DEGs were enriched in photosynthesis-related pathways and were further supported by chlorophyll content measurements. Moreover, tiller-development-related hub genes were identified in the D2R treatment, including F-box/LRR-repeat MAX2 homolog (D3), homeobox-leucine zipper protein HOX12-like (HOX12), and putative laccase-17 (LAC17). The consistency of RNA-seq and qRT-PCR data were validated by high Pearson’s correlation coefficients ranging from 0.899 to 0.998. This study can provide a new irrigation management strategy that might increase plant biomass with less water consumption. In addition, candidate photosynthesis and hub genes in regulating tiller growth may provide new insights for drought-resistant breeding.

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Section: Discussionmentioning

confidence: 99%

Transcriptome-Based Weighted Gene Co-Expression Network Analysis Reveals the Photosynthesis Pathway and Hub Genes Involved in Promoting Tiller Growth under Repeated Drought–Rewatering Cycles in Perennial Ryegrass

Ding,

Zhang,

et al. 2024

Plants

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“…However, there are frequent changes of the humidity in this habitat and as a result H. cruentum can be subjected to rapid desiccation. A study including transcriptomic analysis of this plant was published in 2020 [ 110 ]. The gene expression levels were monitored in frond samples with 100, 80, 6% RWC for drying and 80% RWC for recovery, respectively.…”

Section: Transcriptomes Of Resurrection Plantsmentioning

confidence: 99%

“…h , mild dehydration (3 days, 53-56% RWC), severe dehydration (7 days, 23-27% RWC), desiccation (10 days and 14 days, 6-9% RWC), earlier rehydration (24 h, ~ 30% RWC), later h , moderate dehydration (56 h, 68% RWC), severe dehydration (104 h, 15% RWC), desiccation (224 h, 14% RWC), recovery after-0 h, 12 h (81% RWC), 24 h (93% RWC) and 48 h rehydration (86% RWC) Oropetium thomaeum[107] C h , dehydration-7 days (31% RWC), 14 days (12% RWC), 21 days (7% RWC) and 30 days (5% RWC); rehydration-24 h (38% RWC) and 48 h (52% RWC) Sporobolus stapfianus [108] C h , dehydration-80% RWC, 60% RWC, 40% RWC and 30% RWC, desiccation-~ 11% RWC, recovery-12 and 48 h after rehydration Tripogon loliiformis [109] C h , moderate dehydration (60% RWC), severe dehydration (40% RWC), desiccation (< 10% RWC), rehydration (48 h) [94]C h , moderate dehydration (60% RWC), severe dehydration (40% RWC), desiccation (< 10% RWC), rehydration (48 h) in shoots and roots Xerophyta humilis[39] Leaves: C h , dehydration-80% RWC, 60% RWC, 40% RWC, desiccation-5% RWC; seedsearly maturation (DAF6), mature green (DAF11), mature dry (DAF17) Xerophyta schlechteri[25] Adult plants: dehydration-C h , 80%, 60%, 40%, 20% and 4% RWC, recovery-12 and 24 h post rehydration; seedlings after a drying/rehydration cycle-shoots and roots treated or not with ABA FernsHymenoglossum cruentum[110] C h , early dehydration (80% RWC), late dehydration (6% RWC), rehydration (80% RWC) Hymenophyllum caudiculatum[111] C h , dehydration (~ 60% RWC, 1 day), desiccation (7 days), partial rehydration (~ 60% RWC)…”

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confidence: 99%

Systems biology of resurrection plants

Gechev

Lyall

Petrov

et al. 2021

Cell. Mol. Life Sci.

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Plant species that exhibit vegetative desiccation tolerance can survive extreme desiccation for months and resume normal physiological activities upon re-watering. Here we survey the recent knowledge gathered from the sequenced genomes of angiosperm and non-angiosperm desiccation-tolerant plants (resurrection plants) and highlight some distinct genes and gene families that are central to the desiccation response. Furthermore, we review the vast amount of data accumulated from analyses of transcriptomes and metabolomes of resurrection species exposed to desiccation and subsequent rehydration, which allows us to build a systems biology view on the molecular and genetic mechanisms of desiccation tolerance in plants.

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“…In epiphytic Hymenoglossum cruentum Cav., key genes and gene networks were identified related to intracellular mobility and photosynthetic metabolism in the desiccated state, and those related to detoxifying pathways and stabilization of photosystems during rehydration (Ostria-Gallardo et al 2020b). In a comparison of low-trunk and canopy epiphytes, Ostria-Gallardo et al (2020a) identified multiple differentially expressed genes that may be specific to tolerating desiccation in these microhabitats.…”

Section: Introductionmentioning

confidence: 99%

Ecophysiological differentiation between life stages in filmy ferns (Hymenophyllaceae)

Nitta

Watkins

Holbrook

et al. 2021

Preprint

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Desiccation tolerance was a key trait that allowed plants to colonize land. However, little is known about the transition from desiccation tolerant non-vascular plants to desiccation sensitive vascular ones. Filmy ferns (Hymenophyllaceae) represent a useful system to investigate how water-stress strategies differ between non-vascular and vascular stages within a single organism because they have vascularized sporophytes and nonvascular gametophytes that are each capable of varying degrees of desiccation tolerance. To explore this, we surveyed sporophytes and gametophytes of 19 species (22 taxa including varieties) of filmy ferns on Moorea (French Polynesia) and used chlorophyll fluorescence to measure desiccation tolerance and light responses. We conducted phylogenetically informed analyses to identify differences in physiology between life stages and growth habits. Gametophytes had similar or less desiccation tolerance (ability to recover from 2 d desiccation at -86 MPa) and lower photosynthetic optima (maximum electron transport rate of photosystem II and light level at 95% of that rate) than sporophytes. Epiphytes were more tolerant of desiccation than terrestrial species in both generations. Despite their lack of greater physiological tolerances, gametophytes of several species occurred over a wider elevational range than conspecific sporophytes. Our results demonstrate that filmy fern gametophytes and sporophytes differ in their physiology and niche requirements, and point to the importance of microhabitat in shaping the evolution of water-use strategies in vascular plants.

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Decoding Gene Networks Modules That Explain the Recovery of Hymenoglossum cruentum Cav. After Extreme Desiccation

Cited by 7 publications

References 74 publications

Transcriptome-Based Weighted Gene Co-Expression Network Analysis Reveals the Photosynthesis Pathway and Hub Genes Involved in Promoting Tiller Growth under Repeated Drought–Rewatering Cycles in Perennial Ryegrass

Transcriptome-Based Weighted Gene Co-Expression Network Analysis Reveals the Photosynthesis Pathway and Hub Genes Involved in Promoting Tiller Growth under Repeated Drought–Rewatering Cycles in Perennial Ryegrass

Systems biology of resurrection plants

Ecophysiological differentiation between life stages in filmy ferns (Hymenophyllaceae)

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