Next generation sequencing and transcriptome analysis for identification of ARF and Aux/IAA in pointed gourd (Trichosanthes dioica Roxb.), a non-model plant

Saurabh, Satyajit; Prasad, Dinesh; Masi, Antonio; Vidyarthi, Ambarish Sharan

doi:10.1016/j.scienta.2022.111152

Cited by 4 publications

(5 citation statements)

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“…The genome-wide identification of the Aux/IAA gene family has been achieved in many monocotyledonous and dicotyledonous plant species, including Bletilla striata (27 members) [ 25 ], Dendrocalamus sinicus (26 members) [ 26 ], Hordeum vulgare (36 members) [ 27 ], Trichosanthes dioica (37 members) [ 28 ], Acer rubrum (17 members) [ 29 ] and Ricinus communis (19 members) [ 30 ]. In this study, we reported the first systematic analysis of the Aux/IAA and ARF gene family in the Dendrobium genus, and a total of 14 putative Aux/IAA and 26 ARF genes were validated from the D. officinale genome .…”

Section: Discussionmentioning

confidence: 99%

“…The Aux/IAA proteins from D. officinale were aligned by ClustalX ( http://www.clustal.org/ ) and submitted to the DNAMAN software ( https://www.lynnon.com/index.html ) to conduct an analysis of multiple sequence alignment. The Aux/IAA proteins from D. officinale , A. thaliana and Oryza sativa [ 28 , 29 ] were aligned by default parameters of Muscle built in MEGA-X software ( https://www.megasoftware.net/ ), and used to construct a neighbor-joining (N-J) tree with MEGA-X software ( https://www.megasoftware.net/ ).…”

Section: Methodsmentioning

confidence: 99%

“…html) to conduct an analysis of multiple sequence alignment. The Aux/IAA proteins from D. officinale, A. thaliana and Oryza sativa [28,29] were aligned by default parameters of Muscle built in MEGA-X software (https:// www. megas oftwa re.…”

Section: Bioinformatics Of the Aux/iaa And Arf Gene Familymentioning

confidence: 99%

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Genome-wide identification of Aux/IAA and ARF gene families reveal their potential roles in flower opening of Dendrobium officinale

Zeng

Silva

et al. 2023

BMC Genomics

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Background The auxin indole-3-acetic acid (IAA) is a vital phytohormone that influences plant growth and development. Our previous work showed that IAA content decreased during flower development in the medicinally important orchid Dendrobium officinale, while Aux/IAA genes were downregulated. However, little information about auxin-responsive genes and their roles in D. officinale flower development exists. Results This study validated 14 DoIAA and 26 DoARF early auxin-responsive genes in the D. officinale genome. A phylogenetic analysis classified the DoIAA genes into two subgroups. An analysis of cis-regulatory elements indicated that they were related by phytohormones and abiotic stresses. Gene expression profiles were tissue-specific. Most DoIAA genes (except for DoIAA7) were sensitive to IAA (10 μmol/L) and were downregulated during flower development. Four DoIAA proteins (DoIAA1, DoIAA6, DoIAA10 and DoIAA13) were mainly localized in the nucleus. A yeast two-hybrid assay showed that these four DoIAA proteins interacted with three DoARF proteins (DoARF2, DoARF17, DoARF23). Conclusions The structure and molecular functions of early auxin-responsive genes in D. officinale were investigated. The DoIAA-DoARF interaction may play an important role in flower development via the auxin signaling pathway.

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Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

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Genome-wide identification of Aux/IAA and ARF gene families reveal their potential roles in flower opening of Dendrobium officinale

Zeng

Silva

et al. 2023

BMC Genomics

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“…[15] By its Rasaguna veerya vipaka it acts as Garbhsaya sothohara. Patola (Trichosanthes dioica) have minerals like magnesium, sodium, potassium, copper, and sulphur, vitamins, tannins, saponins, alkaloids, glycosides, flavonoids, steroids, pentacyclic triterpenes, and other bioactive compounds have proven that the Patola is pharmacologically important [16] . Ikshu, (Saccharum officinarum) helps in milk production, cardio protective and energiser.…”

Section: Discussionmentioning

confidence: 99%

Management of Intra Uterine Growth Restriction with Month wise Ksheera Kashaya

Sasi¹,

Sukumaran

2023

Int J Ayu Pharm Res

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Intrauterine Growth Restriction (IUGR) is a main health condition affecting pregnant women and its outcomes are perinatal mortality and morbidity. In the prevailing case a 38 year-old Multi gravida who undergone regular ante natal check-up was detected with Intrauterine Growth restriction at 21 weeks of gestation. The estimated weight of the foetus was found less than 19 percentile and there has been oligohydramnios, pleural effusion and increased pericardial fluid to the foetus on additional evaluation. She was given allopathic control initially; however, the circumstance remains unchanged. She turned into Ayurveda and was handled with the treatment principles of Garbhasosha (foetal emaciation). She was managed by month wise medicated Ksheera kashaya (milk decoction) for Brimhana (nourishing) and pacifying Vata. She delivered a full term healthy female baby of weight 2.57kg through a Lower Segment Caesarean Section. The prognosis by the allopathic system was poor in this case and there are no interventions in their system to improve placental perfusion. In this case the condition was achieved through month wise treatment and specification of Ayurvedic formulations. Completed in a brief span of time, thereby stopping the want for early delivery and the persisted until 39 weeks of gestation. Being a term delivery, the need for neonatal extensive care was no longer arising. The cutting-edge method shows that Ayurveda is tremendously powerful in intra uterine growth restriction and its complications. This case opens the scope for additional studies within the region of Intrauterine Growth Restriction with Ayurvedic drug treatments.

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“…The 16S Metagenomics tool performs taxonomic classi cation of 16S rRNA targeted amplicon reads using an Illumina-curated version of the Green Genes taxonomic database. The tool provides interactive visualizations and raw classi cation output, both for individual samples and as an aggregate analysis [10,11].…”

Section: Culture Independent Studies For Metagenomic Analysismentioning

confidence: 99%

Metagenomic analysis of Hot Springs of Surajkund and the exploration of thermostable enzymes from endogenous isolates

Soy

Lakra

Prakash

et al. 2023

Preprint

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Hot springs serve as a hub for microbial diversity, the microflora of the hot springs can be a source of numerous biologically important molecules. Extremophile bacteria were isolated from different hot springs of India to investigate their potential in industrial applications. The analysis involved both culture dependent and culture independent methods. The metagenomic analysis of the microflora was carried out using next-gen sequencing. Also, thermophilic isolates were culture and primarily screened for amylase, xylanase and cellulase enzyme production. The production for amylase was optimized and partial purification was carried out. Partially purified amylase was tested and characterized using; UPLC, DLS-ZP and TGA. The retention time for the amylase was observed to be around 0.5 minutes along with a stable thermo gravimetric profile around 400oC confirming its stability at higher temperatures. One of the thermophilic isolate was able to degrade lignocellulosic waste exhibiting the potential of isolates from the kund.

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Next generation sequencing and transcriptome analysis for identification of ARF and Aux/IAA in pointed gourd (Trichosanthes dioica Roxb.), a non-model plant

Cited by 4 publications

References 48 publications

Genome-wide identification of Aux/IAA and ARF gene families reveal their potential roles in flower opening of Dendrobium officinale

Genome-wide identification of Aux/IAA and ARF gene families reveal their potential roles in flower opening of Dendrobium officinale

Management of Intra Uterine Growth Restriction with Month wise Ksheera Kashaya

Metagenomic analysis of Hot Springs of Surajkund and the exploration of thermostable enzymes from endogenous isolates

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