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1.
Life (Basel) ; 12(2)2022 Jan 20.
Article in English | MEDLINE | ID: mdl-35207440

ABSTRACT

Gut microbiota succession overlaps with intensive growth in infancy and early childhood. The multitude of functions performed by intestinal microbes, including participation in metabolic, hormonal, and immune pathways, makes the gut bacterial community an important player in cross-talk between intestinal processes and growth. Long-term disturbances in the colonization pattern may affect the growth trajectory, resulting in stunting or wasting. In this review, we summarize the evidence on the mediating role of gut microbiota in the mechanisms controlling the growth of children.

2.
Cells ; 10(4)2021 04 15.
Article in English | MEDLINE | ID: mdl-33921034

ABSTRACT

Retroposition is RNA-based gene duplication leading to the creation of single exon nonfunctional copies. Nevertheless, over time, many of these duplicates acquire transcriptional capabilities. In human in most cases, these so-called retrogenes do not code for proteins but function as regulatory long noncoding RNAs (lncRNAs). The mechanisms by which they can regulate other genes include microRNA sponging, modulation of alternative splicing, epigenetic regulation and competition for stabilizing factors, among others. Here, we summarize recent findings related to lncRNAs originating from retrocopies that are involved in human diseases such as cancer and neurodegenerative, mental or cardiovascular disorders. Special attention is given to retrocopies that regulate their progenitors or host genes. Presented evidence from the literature and our bioinformatics analyses demonstrates that these retrocopies, often described as unimportant pseudogenes, are significant players in the cell's molecular machinery.


Subject(s)
Disease/genetics , Retroelements/genetics , Animals , Humans , Neurodegenerative Diseases/genetics , Open Reading Frames/genetics , RNA, Long Noncoding/genetics , RNA, Long Noncoding/metabolism
3.
Methods Mol Biol ; 1933: 415-429, 2019.
Article in English | MEDLINE | ID: mdl-30945201

ABSTRACT

Long non-coding RNAs (lncRNAs) are a class of potent regulators of gene expression that are found in a wide array of eukaryotes; however, our knowledge about these molecules in plants is very limited. In particular, a number of plant species with important roles in biotechnology, agriculture and basic research still lack comprehensively identified and annotated sets of lncRNAs. To address these shortcomings, we previously created a database of lncRNAs in 10 model species, called CANTATAdb, and now we are expanding this online resource to encompass 39 species, including three algae. The lncRNAs were identified computationally using publicly available RNA sequencing (RNA-Seq) data. Expression values, coding potential calculations and other types of information were used to provide annotations for the identified lncRNAs. The data are freely available for searching, browsing and downloading from an online database called CANTATAdb 2.0 ( http://cantata.amu.edu.pl , http://yeti.amu.edu.pl/CANTATA/ ).


Subject(s)
Computational Biology/methods , Databases, Nucleic Acid , Genome, Plant , Molecular Sequence Annotation , Plants/genetics , RNA, Long Noncoding/genetics , RNA, Plant/genetics , High-Throughput Nucleotide Sequencing/methods , Search Engine , Sequence Analysis, RNA/methods
4.
Database (Oxford) ; 20172017 01 01.
Article in English | MEDLINE | ID: mdl-29220443

ABSTRACT

Database URL: http://yeti.amu.edu.pl/retrogenedb. Secondary database URL: http://rhesus.amu.edu.pl/retrogenedb.


Subject(s)
Databases, Genetic , Eukaryota/genetics , Genome/genetics , Plants/genetics , RNA/genetics , Sequence Analysis, RNA , Animals , Expressed Sequence Tags , Phylogeny , User-Computer Interface
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