Oligo-dT anchored cDNA–SCoT: a novel differential display method for analyzing differential gene expression in response to several stress treatments in mango (Mangifera indica L.)

Luo, Cong; He, Xinhua; Hu, Ying; H, Yu; Ou, Songbang; Fang, Zhong-Bin

doi:10.1016/j.gene.2014.07.024

Cited by 25 publications

(18 citation statements)

References 47 publications

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“…A single primer cDNA-SCoT technique has been applied to study gene expression in different plant species [43–45, 83–85]. The oligo-dT-anchored cDNA-SCoT was used in M. indica to study gene expression under abiotic stresses [44]. In our study, a different banding pattern was produced between treated and untreated plants using the cDNA-SCoT marker which indicated the expression of different genes under NaCl stress (Figures 11, 12, and 13).…”

Section: Resultsmentioning

confidence: 99%

Antioxidant System Response and cDNA-SCoT Marker Profiling inPhoenix dactyliferaL. Plant under Salinity Stress

Al‐Qurainy

Khan

Nadeem

et al. 2017

International Journal of Genomics

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Many Phoenix dactylifera (date palm) cultivars are grown in the arid and semiarid regions of the world, including Saudi Arabia. P. dactylifera is highly tolerant to salinity stress. To investigate the response of Khalas cultivar of P. dactylifera, two-month-old plants were treated with sodium chloride (50, 100, and 150 mM NaCl) for three months. Our result showed that proline content was higher in all treated plants compared to control plants. Thiobarbituric acid reactive substances (TBARS) were increased at 100 and 150 mM NaCl treatments; however, the result was found nonsignificant between control and plants treated at 50 mM NaCl. Similarly, enzyme activities of catalase (CAT) and superoxide dismutase (SOD) were 0.805 and 0.722 U/mg protein/min, respectively, and were greater at 100 and 150 mM NaCl treatments compared to the control plants. Total chlorophyll content and fresh weight of shoots and roots decreased substantially with the increase of salinity. A cDNA start codon-targeted (cDNA-SCoT) marker showed a variation in different gene expressions profiling between treated and untreated plants under various NaCl concentrations.

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Section: Resultsmentioning

confidence: 99%

Antioxidant System Response and cDNA-SCoT Marker Profiling inPhoenix dactyliferaL. Plant under Salinity Stress

Al‐Qurainy

Khan

Nadeem

et al. 2017

International Journal of Genomics

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“…Molecular markers are the most efficient tools which provide new ways for detecting DNA damage (Savva, 1994) as compared with other methods such as morphological, physiological and biochemical investigations (Chen et al, 2010 andLuo et al, 2014).Genetic analyses, based on molecular markers hold the promise of increased interpretation of macrophyte identities when linked with other studies (Elsaied et al, 2015). Mannschreck et al (2002) used AFLP (Amplified Fragment Length Polymorphism) to detect the genetic diversity in Chara species.…”

Section: Morphologicalmentioning

confidence: 99%

Impact of Different Geographical Locations on Genetic Variation and Phytochemical Constituents of Two Medicinal Marine Algae.

Saleh

El-Atroush

2020

Taeckholmia

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Genetic variations and phytochemical constituents of Dictyota dichotoma and Sargassum dentifolium, collected from Hurghada and Abu-Qir bay, were investigated. Results revealed an increase in the concentrations of carotenoids, sugars and DPPH% in the samples of both algal species collected from Hurghada as compared with those collected from Abu-Qir. Regarding the samples collected from Hurghada, an increase in the concentrations of chlorophyll a, b and phenols was recorded in S. dentifolium; while a decrease in chlorophyll a, b only was observed in D. dichotoma. No significant difference was observed in phenol concentrations between D. dichotoma samples collected from the two studied localities. DNA was isolated and thirteen SCoT molecular markers were used to detect the genetic variations between the samples of the two localities. In D. dichotoma, the total average of polymorphism is 56.68%. SCoT-1 exhibited the highest polymorphism (80%), while SCoT-28 recorded the lowest polymorphism (35.71%). In S. dentifolium, the total average of polymorphism is 61.63%. SCoT-3 showed the highest polymorphism (90%), while SCoT-13 exhibited the lowest polymorphism (0.09%). In addition, BSI factor showed a marked difference between the two studied algae that it was 0.87 % in D. dichotoma and 0.77 % in S. dentifolium. Variation in geographical location affects genetic variation and phytochemical composition of D. dichotoma and S. dentifolium. The difference in the responses of the two studied algae to the change of locality and environmental conditions may reflect differences in their gene expression. Moreover, the efficiency of SCoT markers to discriminate between algal species collected from different localities has been confirmed.

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“…It then was widely used to identify genes differentially expressed in different conditions or tissues. For example, it was used in Citrus flavedo tissues to identify and analyze the expression profiling of 98 low-oxygen-regulated genes [ 30 ] and 92 mango genes whose expression were altered in response to environmental stresses [ 31 ].…”

Section: Differential Display Of Mrna By Pcr (Dd-pcr)mentioning

confidence: 99%

“…In particular, the cDNA population can be cleaved by a restriction enzyme and ligated to a known adapter sequence. Moreover, the use of polyT primers with an adapter sequence to create cDNAs directly results in a population harboring a known sequence [ 31 ]. Adapter sequences and primers used for cDNA amplification depend on the method alteration.…”

Section: Differential Display Of Mrna By Pcr (Dd-pcr)mentioning

confidence: 99%

Genetic Approaches to Study Plant Responses to Environmental Stresses: An Overview

Moustafa

Cross

2016

Biology

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The assessment of gene expression levels is an important step toward elucidating gene functions temporally and spatially. Decades ago, typical studies were focusing on a few genes individually, whereas now researchers are able to examine whole genomes at once. The upgrade of throughput levels aided the introduction of systems biology approaches whereby cell functional networks can be scrutinized in their entireties to unravel potential functional interacting components. The birth of systems biology goes hand-in-hand with huge technological advancements and enables a fairly rapid detection of all transcripts in studied biological samples. Even so, earlier technologies that were restricted to probing single genes or a subset of genes still have their place in research laboratories. The objective here is to highlight key approaches used in gene expression analysis in plant responses to environmental stresses, or, more generally, any other condition of interest. Northern blots, RNase protection assays, and qPCR are described for their targeted detection of one or a few transcripts at a once. Differential display and serial analysis of gene expression represent non-targeted methods to evaluate expression changes of a significant number of gene transcripts. Finally, microarrays and RNA-seq (next-generation sequencing) contribute to the ultimate goal of identifying and quantifying all transcripts in a cell under conditions or stages of study. Recent examples of applications as well as principles, advantages, and drawbacks of each method are contrasted. We also suggest replacing the term “Next-Generation Sequencing (NGS)” with another less confusing synonym such as “RNA-seq”, “high throughput sequencing”, or “massively parallel sequencing” to avoid confusion with any future sequencing technologies.

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Oligo-dT anchored cDNA–SCoT: a novel differential display method for analyzing differential gene expression in response to several stress treatments in mango (Mangifera indica L.)

Cited by 25 publications

References 47 publications

Antioxidant System Response and cDNA-SCoT Marker Profiling inPhoenix dactyliferaL. Plant under Salinity Stress

Antioxidant System Response and cDNA-SCoT Marker Profiling inPhoenix dactyliferaL. Plant under Salinity Stress

Impact of Different Geographical Locations on Genetic Variation and Phytochemical Constituents of Two Medicinal Marine Algae.

Genetic Approaches to Study Plant Responses to Environmental Stresses: An Overview

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