DNA-MAN: Dynamic Natural Attributes for Synthetic Military Forces

Edwards, Dalton; Grodevant, N.W.; Lee, P.J.; Peralta, J.B.

doi:10.1109/sieds.2007.4374030

Cited by 2 publications

(3 citation statements)

References 2 publications

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“…To analyze the sequence features of the AP2 domain in the MaERF protein, we performed a multiple sequence alignment of the ERF protein sequence in M. albus using DNAMAN [ 50 ]. The sequence logos for AP2 repeats were generated using WebLogo online tool ( , accessed on 12 December 2021) with the default settings [ 51 ].…”

Section: Methodsmentioning

confidence: 99%

Genome-Wide Identification of ERF Transcription Factor Family and Functional Analysis of the Drought Stress-Responsive Genes in Melilotus albus

Wei

Zhai

et al. 2022

IJMS

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As an important forage legume with high values in feed and medicine, Melilotus albus has been widely cultivated. The AP2/ERF transcription factor has been shown to play an important regulatory role in plant drought resistance, but it has not been reported in the legume forage crop M. albus. To digger the genes of M. albus in response to drought stress, we identified and analyzed the ERF gene family of M. albus at the genome-wide level. A total of 100 MaERF genes containing a single AP2 domain sequence were identified in this study, named MaERF001 to MaERF100, and bioinformatics analysis was performed. Collinearity analysis indicated that segmental duplication may play a key role in the expansion of the M. albus ERF gene family. Cis-acting element predictions suggest that MaERF genes are involved in various hormonal responses and abiotic stresses. The expression patterns indicated that MaERFs responded to drought stress to varying degrees. Furthermore, four up-regulated ERFs (MaERF008, MaERF037, MaERF054 and MaERF058) under drought stress were overexpressed in yeast and indicated their biological functions to confer the tolerance to drought. This work will advance the understanding of the molecular mechanisms underlying the drought response in M. albus. Further study of the promising potential candidate genes identified in this study will provide a valuable resource as the next step in functional genomics studies and improve the possibility of improving drought tolerance in M. albus by transgenic approaches.

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Section: Methodsmentioning

confidence: 99%

Genome-Wide Identification of ERF Transcription Factor Family and Functional Analysis of the Drought Stress-Responsive Genes in Melilotus albus

Wei

Zhai

et al. 2022

IJMS

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“…Deduced amid acid sequences of each gene were aligned using MEGA7 to find conservative regions and coding regions were identified using ORF Finder (Rombel et al 2002, Kumar et al 2016. Primers for RT-qPCR (Table S1 in the Supporting Information) were designed for PCP, LHC, and acpPC cDNA using DNAMAN (Edwards et al 2007). Symbio-DIRS-Dnmt3 cDNA sequence was as previously reported (de Mendoza et al 2018).…”

Section: Methodsmentioning

confidence: 99%

“…Primers for RT‐qPCR (Table in the Supporting Information) were designed for PCP, LHC, and acpPC cDNA using DNAMAN (Edwards et al. 2007). Symbio‐DIRS‐Dnmt3 cDNA sequence was as previously reported (de Mendoza et al.…”

Section: Methodsmentioning

confidence: 99%

Methylation Pattern and Expression Dynamics of Methylase and Photosystem Genes Under varying light Intensities in Fugacium kawagutii (Symbiodiniaceae)

Yang

Lin

2020

Journal of Phycology

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Previous studies have documented extensive methylation of CpG islands and abundant methyltransferase gene (DNMT) in Fugacium kawagutii (formerly Symbiodinium kawagutii) genome. However, whether DNA methylation plays a role in regulating gene expression in this and other dinoflagellates remains unclear. Here, we characterized gene body methylation levels using methylation‐specific PCR (MS‐PCR) and bisulfite sequencing PCR (BSP) and measured transcriptional levels for three photosystem genes in F. kawagutii under different light conditions (20, 100, and 600 µE · m−2 · s−1). To explore the association of methylation with DNA methylase, the expression of DNA methyltransferase (Symbio‐DIRS‐Dnmt3) was also measured. Our results showed that peridinin–chlorophyll a–binding protein (PCP), light‐harvesting complex (LHC), and chlorophyll a‐c–binding protein complex (acpPC) gene expression was all significantly up‐regulated under low light in which their methylation level was down‐regulated, constant, and elevated, respectively. Symbio‐DIRS‐Dnmt3 exhibited elevated transcriptional level under increased light intensity. The results led us to hypothesize that DNA methylation level can be modulated by environmental conditions such as irradiance, probably through the regulation of Symbio‐DIRS‐Dnmt3 transcription level, and in turn may regulate the expression of genes in F. kawagutii. Further study is needed to determine whether the same gene methylation and expression characteristics reported here occur in other dinoflagellates and to explore their ecological implications.

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DNA-MAN: Dynamic Natural Attributes for Synthetic Military Forces

Cited by 2 publications

References 2 publications

Genome-Wide Identification of ERF Transcription Factor Family and Functional Analysis of the Drought Stress-Responsive Genes in Melilotus albus

Genome-Wide Identification of ERF Transcription Factor Family and Functional Analysis of the Drought Stress-Responsive Genes in Melilotus albus

Methylation Pattern and Expression Dynamics of Methylase and Photosystem Genes Under varying light Intensities in Fugacium kawagutii (Symbiodiniaceae)

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