scholarly journals Hybridization With an Invasive Plant of Xanthium strumarium Improves the Tolerance of Its Native Congener X. sibiricum to Cadmium

2021 ◽  
Vol 12 ◽  
Author(s):  
Chenyang Xue ◽  
Yingmei Gao ◽  
Bo Qu ◽  
Peidong Tai ◽  
Cheng Guo ◽  
...  
Keyword(s):  
Invasive Plant ◽  
Extinction Risk ◽  
Wrky Transcription Factor ◽  
Differentially Expressed ◽  
Growth Time ◽  
Xanthium Strumarium ◽  
Carotenoid Cleavage Dioxygenase ◽  
Cd Stress ◽  
Vegetative And Reproductive Growth ◽  
Aba Synthesis

Hybridization is one of the important factors influencing the adaptive evolution of invasive plants. According to previous studies, hybridization with an invasive plant reduces the adaptability of its native congener to environment. However, in this study, the hybridization with an invasive plant of Xanthium strumarium (LT) improves the tolerance and accumulation of its native congener Xanthium sibiricum (CR) to cadmium (Cd). Under Cd stress, X. sibiricum♀ × X. strumarium♂ (ZCR) showed higher biomass and Cd accumulation. Compared with CR, ZCR has longer vegetative and reproductive growth time. Moreover, ZCR adopted more reasonable biomass allocation strategy. ZCR increased the proportion of reproductive allocation and ensured its own survival with the increase of Cd stress. Furthermore, ZCR increased the translocation of Cd to aboveground parts and changed the distribution of Cd. A large amount of Cd is stored in senescent leaves and eliminated from the plant when the leaves fall off, which not only reduces the Cd content in the plant, but also reduces the toxicity of Cd in the normal leaves. Transcriptome analysis shows a total of 2055 (1060 up and 995 down) differentially expressed genes (DEGs) were detected in the leaves of Cd-stressed ZCR compared with CR, while only 792 (521 up and 271 down) were detected in X. strumarium♀ × X. sibiricum♂ (ZLT) compared with LT. A large number of DGEs in ZCR and ZLT are involved in abscisic acid (ABA) synthesis and signal transduction. The genes induced by ABA in ZCR, including CNGC5/20, CPK1/28, CML, PTI1-like tyrosine-protein kinase 3, respiratory burst oxidase homolog protein C, and WRKY transcription factor 33 were found differentially expressed compared CR. carotenoid cleavage dioxygenase 4, NCED1/2, phytoene synthase 2, and CYP707A involved in ABA synthesis and decomposition in ZLT were found differentially expressed compared LT. We speculated that ABA played an important role in Cd transportation of hybrids and Cd distribution in senescent and normal leaves. The results demonstrate that hybridization with an invasive plant improves the adaptability of the hybrid to Cd stress and may enhance the extinction risk of native congener in pollution environment.

Systems Biology Approaches Reveal a Multi-stress Responsive WRKY Transcription Factor and Stress Associated Gene Co-expression Networks in Chickpea

2019 ◽  
Vol 14 (7) ◽  
pp. 591-601 ◽  
Author(s):  
Aravind K. Konda ◽  
Parasappa R. Sabale ◽  
Khela R. Soren ◽  
Shanmugavadivel P. Subramaniam ◽  
Pallavi Singh ◽  
...  
Keyword(s):  
Expression Pattern ◽  
Gene Networks ◽  
Molecular Mechanisms ◽  
Enrichment Analysis ◽  
Functional Enrichment Analysis ◽  
Wrky Transcription Factor ◽  
Functional Enrichment ◽  
Differentially Expressed ◽  
Callose Deposition ◽  
Significant Probability

Background: Chickpea is a nutritional rich premier pulse crop but its production encounters setbacks due to various stresses and understanding of molecular mechanisms can be ascribed foremost importance. Objective: The investigation was carried out to identify the differentially expressed WRKY TFs in chickpea in response to herbicide stress and decipher their interacting partners. Methods: For this purpose, transcriptome wide identification of WRKY TFs in chickpea was done. Behavior of the differentially expressed TFs was compared between other stress conditions. Orthology based cofunctional gene networks were derived from Arabidopsis. Gene ontology and functional enrichment analysis was performed using Blast2GO and STRING software. Gene Coexpression Network (GCN) was constructed in chickpea using publicly available transcriptome data. Expression pattern of the identified gene network was studied in chickpea-Fusarium interactions. Results: A unique WRKY TF (Ca_08086) was found to be significantly (q value = 0.02) upregulated not only under herbicide stress but also in other stresses. Co-functional network of 14 genes, namely Ca_08086, Ca_19657, Ca_01317, Ca_20172, Ca_12226, Ca_15326, Ca_04218, Ca_07256, Ca_14620, Ca_12474, Ca_11595, Ca_15291, Ca_11762 and Ca_03543 were identified. GCN revealed 95 hub genes based on the significant probability scores. Functional annotation indicated role in callose deposition and response to chitin. Interestingly, contrasting expression pattern of the 14 network genes was observed in wilt resistant and susceptible chickpea genotypes, infected with Fusarium. Conclusion: This is the first report of identification of a multi-stress responsive WRKY TF and its associated GCN in chickpea.

scholarly journals Chromosome numbers of invasive and potentially invasive species in the flora of the Republic of Altai. Post V

Turczaninowia ◽  
2021 ◽  
Vol 24 (4) ◽  
pp. 99-107
Author(s):  
Elena Yu. Zykova ◽  
Tatyana V. Pankova ◽  
Maria N. Lomonosova
Keyword(s):  
Chromosome Numbers ◽  
Western Siberia ◽  
Invasive Plant ◽  
Xanthium Strumarium ◽  
Published Data ◽  
Common Distribution ◽  
Cosmos Bipinnatus ◽  
History Of ◽  
Eriochloa Villosa ◽  
The Republic

Chromosome numbers (2n) of 15 invasive and potentially invasive plant species from the families Asteraceae, Brassicaceae, Caryophyllaceae, Malvaceae, Onagraceae, Papaveraceae, Plantaginaceae, Poaceae, Polygonaceae, Portulacaceae, and Rosaceae are reported on the samples collected in the Republic of Altai. To determine the chromosome number (ploidy level), the method of direct counting was used. Among studied species, chromosome complements for Persicaria orientalis (2n = 22), Potentilla norvegica (2n = 42), Veronica persica (2n = 28) were first examined from Russia; for Papaver rhoeas (2n = 14) and Rumex obtusifolius (2n = 20) – from Asian part of Russia; for Bromus squarrosus (2n = 14), Cosmos bipinnatus (2n = 24), and Eriochloa villosa (2n = 54) – from Siberia. Abutilon theophrasti (2n = 42) and Lepidium densiflorum (2n = 32) were first studied from Western Siberia; Epilobium ciliatum subsp. adenocaulon (2n = 36), Portulaca oleracea (2n = 36), Spergularia rubra (2n = 36), and Xanthium strumarium (2n = 36) – from the Republic of Altai. Common distribution and the history of floristic findings of these species in the Republic of Altai are given. Previously published data on chromosome numbers from Russia are cited.

scholarly journals Comparative transcriptome analysis uncovers roles of hydrogen sulfide for alleviating cadmium toxicity in Tetrahymena thermophila

2020 ◽  
Author(s):  
Hongrui Lv ◽  
Jing Xu ◽  
Tao Bo ◽  
Wei Wang
Keyword(s):  
Heavy Metal ◽  
Hydrogen Sulfide ◽  
Transcriptome Analysis ◽  
Metal Toxicity ◽  
Tetrahymena Thermophila ◽  
Heavy Metal Toxicity ◽  
Differentially Expressed ◽  
Cds Nanoparticles ◽  
Comparative Transcriptome ◽  
Cd Stress

Abstract Background: Cadmium (Cd) is a nonessential heavy metal with potentially deleterious effects on different organisms. The organisms have evolved sophisticated defense system to alleviate heavy metal toxicity. Hydrogen sulfide (H2S) effectively alleviates heavy metal toxicity in plants and reduces oxidative stress in mammals. However, the function of H2S for alleviating heavy metal toxicity in aquatic organisms remains less clear. Tetrahymena thermophila is an important model organism to evaluate toxic contaminants in an aquatic environment. In this study, the molecular roles of exogenously H2S application were explored by RNA sequencing under Cd stress in T. thermophila.Results: The exposure of 30 µM Cd resulted in T. thermophila growth inhibition, cell nigrescence, and malondialdehyde (MDA) content considerably increase. However, exogenous NaHS (donor of H2S, 70 µM) significantly alleviated the Cd-induced toxicity by inhibiting Cd absorbtion, promoting CdS nanoparticles formation and improved antioxidant system. Comparative transcriptome analysis showed that the expression levels of 9152 genes changed under Cd stress (4658 upregulated and 4494 downregulated). However, only 1359 genes were differentially expressed with NaHStreatment under Cd stress (1087 upregulated and 272 downregulated). The functional categories of the differentially expressed genes (DEGs) by gene ontology (GO) revealed that the transcripts involved in the oxidation–reduction process, oxidoreductase activity, glutathione peroxidase activity, and cell redox homeostasis were the considerable enrichments between Cd stress and NaHS treatment under Cd stress. Kyoto Encyclopedia of Genes and Genomes (KEGG) indicated that the carbon metabolism, glutathione metabolism, metabolism of xenobiotics by cytochrome P450, and ABC transporters were significantly differentially expressed components between Cd stress and NaHS treatment under Cd stress in T. thermophila. The relative expression levels of six DEGs were further confirmed through quantitative real-time polymerase chain reaction (qRT-PCR). Conclusion: NaHS alleviated Cd stress mainly through inhibiting Cd absorbtion, promoting CdS nanoparticles formation, increasing oxidation resistance, enhancing detoxification, and regulation of transport in free-living unicellular T. thermophila. These findings will expand our understanding for H2S functions in the freshwater protozoa.

scholarly journals Transcriptome analysis reveals the roles of stem nodes in cadmium transport to rice grain

2019 ◽  
Author(s):  
Ailing Liu ◽  
Zhibo Zhou ◽  
Yake Yi ◽  
Guanghui Chen
Keyword(s):  
Differentially Expressed Genes ◽  
Expression Patterns ◽  
Critical Role ◽  
Differentially Expressed ◽  
Rice Grain ◽  
Rna Seq ◽  
Cd Stress ◽  
Cd Accumulation ◽  
Cadmium Transport ◽  
Central Organ

Abstract Background: Node is the central organ of xylem to phloem transfer of nutrients and ions in plants. Cadmium (Cd)-induced crop pollution threatens food safety. Breeding cultivar with low Cd accumulation is a chance to resolve this universal problem. This study was performed to identify tissue specific genes involved in Cd accumulation in different rice stem nodes. Panicle node and the first node under panicle (node I) were sampled in two rice cultivars: Xiangwanxian No. 12 with low Cd accumulation and Yuzhenxiang with high Cd accumulation in the grains. RNA-seq analysis was performed to identify differentially expressed genes (DEGs) and microRNAs. Results: Xiangwanxian No. 12 had lower Cd concentration in panicle node, node I and grain compared with Yuzhenxiang , and node Ⅰ had the highest Cd concentration in the two cultivars. RNA seq analysis identified 4,535 differentially expressed genes and 70 miRNAs between the two cultivars. Most genes ( OsIRT1 , OsNramp5, OsVIT2 , OsNRT1.5A, and OsABCC1 ) related to the “transporter activity” blocked the transport of Cd up to panicle and accumulation in grains of low Cd-accumulative cultivar. Among the genes related to “response to stimulus”, we identified OsHSP70 and OsHSFA2d/B2c in “X”, but not in “y”, were all down-regulated by Cd stimulus. The up-regulation of miRNAs ( osa-miR528 and osa-miR408 ) played a potent role in lowering Cd accumulation via down regulation of genes, such as bZIP , ERF , MYB , SnRK1 and HSPs in Xiangwanxian No. 12 cultivar. Conclusions: Both panicle node and node I of Xiangwanxian No. 12 played a key role in blocking the upward transportation of Cd, while node I played a critical role in Yuzhenxiang . Distinct expression patterns of various transporter genes such as OsNRT1.5A, OsNramp5, OsIRT1, OsVIT2 and OsABCC1 resulted in differential Cd accumulation in different nodes. Likewise, distinct expression patterns of these transporter genes are likely responsible for the low Cd accumulation in Xiangwanxian No. 12 cultivar . MiRNAs drove multiple transcription factors, such as OsbZIPs, OsERFs, OsMYBs , to play a role in stress response, which contribute to the response to Cd stress in rice.

scholarly journals Ecological impacts of the invasive plant Xanthium strumarium and the impacts of three aboveground herbivores on the invader

2021 ◽  
Vol 131 ◽  
pp. 108140
Author(s):  
Mazher Farid Iqbal ◽  
Yu-Long Feng ◽  
Wei-Wei Feng ◽  
Ming-Chao Liu ◽  
Xiu-Rong Lu
Keyword(s):  
Invasive Plant ◽  
Ecological Impacts ◽  
Xanthium Strumarium

scholarly journals Comparative transcriptome analysis uncovers roles of hydrogen sulfide for alleviating cadmium toxicity in Tetrahymena thermophila

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Hongrui Lv ◽  
Jing Xu ◽  
Tao Bo ◽  
Wei Wang
Keyword(s):  
Heavy Metal ◽  
Hydrogen Sulfide ◽  
Transcriptome Analysis ◽  
Metal Toxicity ◽  
Tetrahymena Thermophila ◽  
Heavy Metal Toxicity ◽  
Differentially Expressed ◽  
Cds Nanoparticles ◽  
Comparative Transcriptome ◽  
Cd Stress

Abstract Background Cadmium (Cd) is a nonessential heavy metal with potentially deleterious effects on different organisms. The organisms have evolved sophisticated defense system to alleviate heavy metal toxicity. Hydrogen sulfide (H2S) effectively alleviates heavy metal toxicity in plants and reduces oxidative stress in mammals. However, the function of H2S for alleviating heavy metal toxicity in aquatic organisms remains less clear. Tetrahymena thermophila is an important model organism to evaluate toxic contaminants in an aquatic environment. In this study, the molecular roles of exogenously H2S application were explored by RNA sequencing under Cd stress in T. thermophila. Results The exposure of 30 μM Cd resulted in T. thermophila growth inhibition, cell nigrescence, and malondialdehyde (MDA) content considerably increase. However, exogenous NaHS (donor of H2S, 70 μM) significantly alleviated the Cd-induced toxicity by inhibiting Cd absorbtion, promoting CdS nanoparticles formation and improving antioxidant system. Comparative transcriptome analysis showed that the expression levels of 9152 genes changed under Cd stress (4658 upregulated and 4494 downregulated). However, only 1359 genes were differentially expressed with NaHS treatment under Cd stress (1087 upregulated and 272 downregulated). The functional categories of the differentially expressed genes (DEGs) by gene ontology (GO) revealed that the transcripts involved in the oxidation–reduction process, oxidoreductase activity, glutathione peroxidase activity, and cell redox homeostasis were the considerable enrichments between Cd stress and NaHS treatment under Cd stress. Kyoto Encyclopedia of Genes and Genomes (KEGG) indicated that the carbon metabolism, glutathione metabolism, metabolism of xenobiotics by cytochrome P450, and ABC transporters were significantly differentially expressed components between Cd stress and NaHS treatment under Cd stress in T. thermophila. The relative expression levels of six DEGs were further confirmed through quantitative real-time polymerase chain reaction (qRT-PCR). Conclusion NaHS alleviated Cd stress mainly through inhibiting Cd absorbtion, promoting CdS nanoparticles formation, increasing oxidation resistance, and regulation of transport in free-living unicellular T. thermophila. These findings will expand our understanding for H2S functions in the freshwater protozoa.

scholarly journals A study of the heterochronic sense/antisense RNA representation in florets of sexual and apomictic Paspalum notatum

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Maricel Podio ◽  
Carolina Colono ◽  
Lorena Siena ◽  
Juan Pablo A. Ortiz ◽  
Silvina Claudia Pessino
Keyword(s):  
Comparative Analysis ◽  
Developmental Stages ◽  
De Novo ◽  
Wrky Transcription Factor ◽  
Hormonal Control ◽  
Differentially Expressed ◽  
Paspalum Notatum ◽  
Antisense Transcripts ◽  
Antisense Gene ◽  
Heritable Trait

Abstract Background Apomixis, an asexual mode of plant reproduction, is a genetically heritable trait evolutionarily related to sexuality, which enables the fixation of heterozygous genetic combinations through the development of maternal seeds. Recently, reference floral transcriptomes were generated from sexual and apomictic biotypes of Paspalum notatum, one of the most well-known plant models for the study of apomixis. However, the transcriptome dynamics, the occurrence of apomixis vs. sexual expression heterochronicity across consecutive developmental steps and the orientation of transcription (sense/antisense) remain unexplored. Results We produced 24 Illumina TruSeq®/ Hiseq 1500 sense/antisense floral transcriptome libraries covering four developmental stages (premeiosis, meiosis, postmeiosis, and anthesis) in biological triplicates, from an obligate apomictic and a full sexual genotype. De novo assemblies with Trinity yielded 103,699 and 100,114 transcripts for the apomictic and sexual samples respectively. A global comparative analysis involving reads from all developmental stages revealed 19,352 differentially expressed sense transcripts, of which 13,205 (68%) and 6147 (32%) were up- and down-regulated in apomictic samples with respect to the sexual ones. Interestingly, 100 differentially expressed antisense transcripts were detected, 55 (55%) of them up- and 45 (45%) down-regulated in apomictic libraries. A stage-by-stage comparative analysis showed a higher number of differentially expressed candidates due to heterochronicity discrimination: the highest number of differential sense transcripts was detected at premeiosis (23,651), followed by meiosis (22,830), postmeiosis (19,100), and anthesis (17,962), while the highest number of differential antisense transcripts were detected at anthesis (495), followed by postmeiosis (164), meiosis (120) and premeiosis (115). Members of the AP2, ARF, MYB and WRKY transcription factor families, as well as the auxin, jasmonate and cytokinin plant hormone families appeared broadly deregulated. Moreover, the chronological expression profile of several well-characterized apomixis controllers was examined in detail. Conclusions This work provides a quantitative sense/antisense gene expression catalogue covering several subsequent reproductive developmental stages from premeiosis to anthesis for apomictic and sexual P. notatum, with potential to reveal heterochronic expression between reproductive types and discover sense/antisense mediated regulation. We detected a contrasting transcriptional and hormonal control in apomixis and sexuality as well as specific sense/antisense modulation occurring at the onset of parthenogenesis.

scholarly journals Functional Annotation of circRNAs in Tea Leaves after Infection by the Tea Leaf Spot Pathogen, Lasiodiplodia theobromae

2021 ◽  
Author(s):  
Yuanyou Yang ◽  
Xinyue Jiang ◽  
Jiayan Shi ◽  
Yu Wang ◽  
Honglin Huang ◽  
...  
Keyword(s):  
Transcription Factor ◽  
Protein Kinase ◽  
Leaf Spot ◽  
Functional Annotation ◽  
Wrky Transcription Factor ◽  
Differentially Expressed ◽  
Tea Leaves ◽  
Lasiodiplodia Theobromae ◽  
Host Pathogen ◽  
Tea Leaf

Tea leaf spot, caused by Lasiodiplodia theobromae, is an important disease that can seriously decrease the production and quality of tea (Camellia sinensis [L.] Kuntze) leaves. The analysis of circular RNA (circRNA) in tea leaves after infection by the pathogen could improve understanding about the mechanism of host-pathogen interactions. In this study, high-performance sequencing of circRNA from C. sinensis Fuding-dabaicha leaves that had been infected with L. theobromae was conducted using the Illumina HiSeq 4000 platform. A total of 192 and 153 differentially-expressed circRNAs from tea leaves were significantly up- and down-regulated, respectively, after infection with L. theobromae. A GO analysis indicated that the differentially expressed circRNA-hosting-genes for DNA binding were significantly enriched. The genes with significantly differential expressions that were annotated in the specified database (S genes) were Sigma factor E isoform 1, Triacylglycerol lipase SDP1, DNA-directed RNA polymerase III subunit 2, WRKY transcription factor WRKY24, and regulator of nonsense transcripts 1 homolog. A KEGG analysis indicated that the significantly enriched circRNA-hosting-genes involved in the plant-pathogen interaction pathway were Calmodulin-domain protein kinase 5 isoform 1, probable WRKY transcription factor 33, U-box domain-containing protein 35, probable inactive receptor-like protein kinase At3g56050, WRKY transcription factor WRKY24, mitogen-activated protein kinase kinase kinase YODA, SGT1, and protein DGS1, etc. Functional annotation of circRNAs in tea leaves infected by L. theobromae will provide a valuable resource for future research on host-pathogen interactions.

scholarly journals Comparative Transcriptome Analysis Uncovers Roles of Hydrogen Sulfide for Alleviating Cadmium Toxicity in Tetrahymena Thermophila

2020 ◽  
Author(s):  
Hongrui Lv ◽  
Jing Xu ◽  
Tao Bo ◽  
Wei Wang
Keyword(s):  
Heavy Metal ◽  
Hydrogen Sulfide ◽  
Transcriptome Analysis ◽  
Metal Toxicity ◽  
Tetrahymena Thermophila ◽  
Heavy Metal Toxicity ◽  
Differentially Expressed ◽  
Comparative Transcriptome ◽  
Cd Stress ◽  
Comparative Transcriptome Analysis

Abstract BackgroundCadmium (Cd) is a nonessential heavy metal with potentially deleterious effects on different organisms. The organisms have evolved sophisticated defense system to alleviate heavy metal toxicity. Hydrogen sulfide (H2S) effectively alleviates heavy metal toxicity in plants. However, the function of H2S for alleviating heavy metal toxicity in aquatic organisms remains less clear. Tetrahymena thermophila is an important model organism to evaluate toxic contaminants in an aquatic environment. In this study, the molecular roles of exogenously H2S application were explored by RNA sequencing under Cd stress in T. thermophila.ResultsThe exposure of 30 µM Cd resulted in T. thermophila growth inhibition, cell nigrescence, and malondialdehyde (MDA) content considerably increase. However, exogenous H2S (70 µM) significantly alleviated the Cd-induced toxicity and improved antioxidant system. Comparative transcriptome analysis showed that the expression levels of 9152 genes changed under Cd stress (4658 upregulated and 4494 downregulated). However, only 1359 genes were differentially expressed with H2S treatment under Cd stress (1087 upregulated and 272 downregulated). The functional categories of the differentially expressed genes (DEGs) by gene ontology (GO) revealed that the transcripts involved in the oxidation–reduction process, oxidoreductase activity, glutathione peroxidase activity, and cell redox homeostasis were the considerable enrichments between Cd stress and H2S treatment under Cd stress. Kyoto Encyclopedia of Genes and Genomes (KEGG) indicated that the carbon metabolism, glutathione metabolism, metabolism of xenobiotics by cytochrome P450, and ABC transporters were significantly differentially expressed components between Cd stress and H2S treatment under Cd stress in T. thermophila. The relative expression levels of six DEGs were further confirmed through quantitative real-time polymerase chain reaction (qRT-PCR).ConclusionH2S alleviated Cd stress mainly through increasing oxidation resistance, enhancing detoxification, and regulation of transport in free-living unicellular T. thermophila. These findings will expand our understanding for H2S functions in the freshwater protozoa.

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