Molecular Sequence Annotation

Publication Title: 
Biomaterials

Carbon nanotubes (CNTs) are one of widely used nanomaterials in industry and biomedicine. The potential impact of single-walled carbon nanotubes (SWCNTs) was evaluated using Caenorhabditis elegans (C. elegans) as a toxicological animal model. SWCNTs are extremely hydrophobic to form large agglomerates in aqueous solutions. Highly soluble amide-modified SWCNTs (a-SWCNTs) were therefore used in the present study so that the exact impact of SWCNTs could be studied. No significant toxicity was observed in C. elegans due to the amide modification.

Author(s): 
Chen, Po-Hsuan
Hsiao, Kuang-Ming
Chou, Cheng-Chung
Publication Title: 
BMC genomics

BACKGROUND: While studying long-lived mutants has advanced our understanding of the processes involved in ageing, the mechanisms underlying natural variation in lifespan and ageing rate remain largely unknown. Here, we characterise genome-wide expression patterns of a long-lived, natural variant of Drosophila melanogaster resulting from selection for starvation resistance (SR) and compare it with normal-lived control flies (C).

Author(s): 
Doroszuk, Agnieszka
Jonker, Martijs J.
Pul, Nicolien
Breit, Timo M.
Zwaan, Bas J.
Publication Title: 
Genome Biology

BACKGROUND: Dynamic changes to the epigenome play a critical role in establishing and maintaining cellular phenotype during differentiation, but little is known about the normal methylomic differences that occur between functionally distinct areas of the brain. We characterized intra- and inter-individual methylomic variation across whole blood and multiple regions of the brain from multiple donors.

Author(s): 
Davies, Matthew N.
Volta, Manuela
Pidsley, Ruth
Lunnon, Katie
Dixit, Abhishek
Lovestone, Simon
Coarfa, Cristian
Harris, R. Alan
Milosavljevic, Aleksandar
Troakes, Claire
Al-Sarraj, Safa
Dobson, Richard
Schalkwyk, Leonard C.
Mill, Jonathan
Publication Title: 
Cytogenetic and Genome Research

The epigenome is thought to mediate between genes and the environment, particularly in response to adverse life experiences. Similar to other psychiatric diseases, the suicide liability of an individual appears to be influenced by many genetic factors of small effect size as well as by environmental stressors.

Author(s): 
Schneider, Eberhard
El Hajj, Nady
M¸ller, Fabian
Navarro, Bianca
Haaf, Thomas
Publication Title: 
PloS One

Herbal remedies are increasingly being recognised in recent years as alternative medicine for a number of diseases including cancer. Curcuma longa L., commonly known as turmeric is used as a culinary spice in India and in many Asian countries has been attributed to lower incidences of gastrointestinal cancers. Curcumin, a secondary metabolite isolated from the rhizomes of this plant has been shown to have significant anticancer properties, in addition to antimalarial and antioxidant effects. We sequenced the transcriptome of the rhizome of the 3 varieties of Curcuma longa L.

Author(s): 
Annadurai, Ramasamy S.
Neethiraj, Ramprasad
Jayakumar, Vasanthan
Damodaran, Anand C.
Rao, Sudha Narayana
Katta, Mohan A. V. S. K.
Gopinathan, Sreeja
Sarma, Santosh Prasad
Senthilkumar, Vanitha
Niranjan, Vidya
Gopinath, Ashok
Mugasimangalam, Raja C.
Publication Title: 
PloS One

Withania somnifera is one of the most valuable medicinal plants used in Ayurvedic and other indigenous medicine systems due to bioactive molecules known as withanolides. As genomic information regarding this plant is very limited, little information is available about biosynthesis of withanolides. To facilitate the basic understanding about the withanolide biosynthesis pathways, we performed transcriptome sequencing for Withania leaf (101L) and root (101R) which specifically synthesize withaferin A and withanolide A, respectively.

Author(s): 
Gupta, Parul
Goel, Ridhi
Pathak, Sumya
Srivastava, Apeksha
Singh, Surya Pratap
Sangwan, Rajender Singh
Asif, Mehar Hasan
Trivedi, Prabodh Kumar
Publication Title: 
PloS One

Withania somnifera is one of the most valuable medicinal plants used in Ayurvedic and other indigenous medicine systems due to bioactive molecules known as withanolides. As genomic information regarding this plant is very limited, little information is available about biosynthesis of withanolides. To facilitate the basic understanding about the withanolide biosynthesis pathways, we performed transcriptome sequencing for Withania leaf (101L) and root (101R) which specifically synthesize withaferin A and withanolide A, respectively.

Author(s): 
Gupta, Parul
Goel, Ridhi
Pathak, Sumya
Srivastava, Apeksha
Singh, Surya Pratap
Sangwan, Rajender Singh
Asif, Mehar Hasan
Trivedi, Prabodh Kumar
Publication Title: 
Glycobiology

Bovine milk oligosaccharides (BMOs) are recognized by the dairy and food industries, as well as by infant formula manufacturers, as novel, high-potential bioactive food ingredients. Recent studies revealed that bovine milk contains complex oligosaccharides structurally related to those previously thought to be present in only human milk. These BMOs are microbiotic modulators involved in important biological activities, including preventing pathogen binding to the intestinal epithelium and serving as nutrients for a selected class of beneficial bacteria.

Author(s): 
Aldredge, Danielle L.
Geronimo, Maria R.
Hua, Serenus
Nwosu, Charles C.
Lebrilla, Carlito B.
Barile, Daniela
Publication Title: 
PloS One

In the heart, lysine acetylation has been implicated in processes ranging from transcriptional control of pathological remodeling, to cardioprotection arising from caloric restriction. Given the emerging importance of this post-translational modification, we used a proteomic approach to investigate the broader role of lysine acetylation in the heart using a guinea pig model. Briefly, hearts were fractionated into myofilament-, mitochondrial- and cytosol-enriched fractions prior to proteolysis and affinity-enrichment of acetylated peptides.

Author(s): 
Foster, D. Brian
Liu, Ting
Rucker, Jasma
O'Meally, Robert N.
Devine, Lauren R.
Cole, Robert N.
O'Rourke, Brian
Publication Title: 
BMC systems biology

BACKGROUND: Multicomponent therapeutics offer bright prospects for the control of complex diseases in a synergistic manner. However, finding ways to screen the synergistic combinations from numerous pharmacological agents is still an ongoing challenge.

Author(s): 
Li, Shao
Zhang, Bo
Zhang, Ningbo

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