Showing posts with label cellular aging. Show all posts
Showing posts with label cellular aging. Show all posts

Monday, January 6, 2025

human scRNA aging data

 There are some human single cell aging data,

 
 
 
 
https://pmc.ncbi.nlm.nih.gov/articles/PMC10306289/#_ad93_

Human PBMC scRNA-seq–based aging clocks reveal ribosome to inflammation balance as a single-cell aging hallmark and super longevity

 1, 2, 2, 1,3 1 4 4 1,* 2,*

Friday, July 19, 2024

Modes of Bacterial Aging and Death

 

Modes of Bacterial Aging and Death

Abstract

Currently, ``biological aging'' is well defined in human beings and multicellular organisms, and is one of the largest risk factors for most diseases. However, in single cell organisms there has been a sequence of various definitions. My research focuses on understanding the cellular processes responsible for senescence and death in E. coli bacteria as well as identifying cellular characteristics of aging. We employed an experimental setup consisting of a microfluidic device designed to trap single-cells while continuously supplying them with nutrients, allowing us to acquire images of the trapped cells. Analysis of these images provides long-term single-cell measurements of cell-size and protein content, which are then used to uncover aging effects and determine modes of cell death. Our data acquired thus far reveal two different phenotypes of cell death: 1. Part of the cells maintain their bacterial chromosome and enter a non-dividing phase. 2. A subset of the population loses its chromosome and so all cellular functions are obstructed. Our results indicate aging in all strains, which is marked by the increase in death rate with time. In addition, by comparing wild type and an ATP synthase E. coli mutant, we found different average lifetimes prior to undergoing these transitions.


Maryam Kohram
Bacterial aging as a consequence of heterogeneity-driven adaptability

Friday, May 7, 2021

lifespan of cells and tissues

 

https://www.sciencefocus.com/the-human-body/what-cells-in-the-human-body-live-the-longest/#:~:text=Although%20the%20our%20bodies%20are,around%20for%20longer%20than%20others.&text=On%20average%2C%20the%20cells%20in,different%20organs%20of%20the%20body.

on average: 7-10

neutrophils, white cell: 2 days

cell in the middle eye lenses: entire lifespan of the host

brain cells: might live longer than the host

Brain cells: 200+ years?

Eye lens cells: Lifetime

Egg cells: 50 years

Heart muscle cells: 40 years

Intestinal cells (excluding lining): 15.9 years

Skeletal muscle cells: 15.1 years

Fat cells: 8 years

Hematopoietic stem cells: 5 years

Liver cells: 10-16 months

Pancreas cells: 1 year

Wednesday, December 16, 2020

proteostasis collapase is a driver of cell aging and death

 Santra, Deill, and de Graff, PNAS 2019

use folded and unfoled protein, damage to model aging. 




 

Thursday, December 3, 2020

heterochromatin loss model for cellular aging

 

Imai and Kitano 1998 heterochromatin islands hypothesis for cellular aging

https://pubmed.ncbi.nlm.nih.gov/9789733/

The mechanism of cellular aging has been suggested to play an important role in organismic aging, but the molecular linkage between them is not still understood. The recent progress in the studies of telomere and telomerase demonstrates their substantial roles in the mechanism of cellular aging. On the other hand, these studies also raise controversial issues about the generality of the telomere hypothesis. The heterochronic, polymorphic, and probabilistic features of cellular aging should be reconsidered critically. In this review, we attempt to develop a general scheme for the driving force of cellular aging, based on our molecular and computational studies. Our molecular analyses suggest that global transcriptional repressive structures are essentially involved in cellular aging-associated transcriptional regulation. From our theoretical studies, systematic reorganization of these repressive structures are suggested to be a fundamental driving force of cellular aging. The heterochromatin island hypothesis is proposed to give a rational explanation for the three distinctive features of cellular aging. The importance of a dynamic equilibrium in heterochromatin islands is also discussed for cellular and organismic aging.



The heterochromatin loss model of aging

https://pubmed.ncbi.nlm.nih.gov/9315443/

There are significant changes in gene expression that occur with cellular senescence and organismic aging. Genes residing in compacted heterochromatin domains are typically silenced due to an altered accessibility to transcription factors. Heterochromatin domains and gene silencing are set up in early development and were initially believed to be maintained for the remainder of the lifespan. Recent data suggest that there may be a net loss of heterochromatin with advancing age in both yeast and mice. The gradual loss of heterochromatin-induced gene silencing could explain the changes in gene expression that are closely linked with aging. A general model is proposed for heterochromatin loss as a major factor in generating alterations in gene expression with age. The heterochromatin loss model is supported by several lines of evidence and suggests that a fundamental genetic mechanism underlies most of the changes in gene expression observed with senescence.


Wednesday, May 23, 2018

NIA aging cell repository

https://www.coriell.org/1/NIA

https://www.nia.nih.gov/research/blog/2018/05/nia-aging-cell-repository-facilitating-research-aging-cells?utm_source=20180523_blog&utm_medium=email&utm_campaign=research_blog


The NIA Aging Cell Repository is located at the Coriell Institute for Medical Research in Camden, New Jersey, where it provides biological samples from older animals and people to researchers investigating the science behind aging. Cells and DNA samples are collected using strict diagnostic criteria and banked under high-quality standards of cell culture and DNA purification Scientists from more than 40 countries have used the highly characterized, viable, and contaminant-free cell cultures from this collection for cellular and molecular research on the biology of aging.  
Examples of potential uses: Cells from young and old mice can be compared to determine specific differences in how they harvest energy, make new proteins, and dispose of waste. DNA collected from octogenarians, nonagenerians, and centenarians can be used to search for potential biomarkers of aging in people.

How to obtain cell and tissue samples

You can order samples directly from the Coriell Institute. The Institute ships an average of 1,200 cell cultures and over 400 DNA samples or panels from the aging cell bank each year. About 90 percent of the shipments go to investigators at academic, nonprofit, or government institutions; at present, cells and DNA are available to these institutions at no cost. Instructions for ordering cells and additional information on pricing is available at https://www.coriell.org/NIA/How-to-Order/Ordering.

Saturday, February 17, 2018

cell size and aging

In yeast, cell size is an indicator for cell's remaining replicative lifespan, based on Jo 2015. So, the limit of cell size could be aging itself.

Monday, November 20, 2017

cellular aging in immune systems

purified monocytes, B cells and T cells, from young and old donors

http://jem.rupress.org/content/early/2017/09/12/jem.20170416

"This signature is borne by memory CD8+ T cells, which exhibited an aging-related loss in binding of NF-κB and STAT factors. Thus, our study provides a unique and comprehensive approach to identifying candidate biomarkers and provides mechanistic insights into aging-associated immunodeficiency."

Friday, August 26, 2016

Eisenberg 2009 Nature

Eisenberg 2009 Nature

Survival determined by annexin V/7‑AAD co-staining (unstained cells
were considered as viable) of human immune cells (PBMC) cultured for
6 and 12 days in the absence (black bar) or presence (white bars) of various
spermidine concentrations (as indicated).

Tuesday, September 22, 2015

white and red blood cells

Red blood cells, photohemolysis
M. Al-Akhras, A new application of Gompertz function in photohemolysis: the effect of temperature on red blook cell hemolysis phtosensitized by protoporthyrin IX, Med Bio, Eng Comput. 2006, 44:703-710.  Figures are plotted as percentage of dead cells ~ time, i.e., 1-viability ~ time.

http://www.haematologica.org/content/early/2015/02/09/haematol.2014.116368.abstract

http://onlinelibrary.wiley.com/doi/10.1002/ajh.23982/abstract;jsessionid=0CA8BAF2EF87DAE6D642B2B5CE13CB1B.f02t04?userIsAuthenticated=false&deniedAccessCustomisedMessage=


Late stages of hematopoiesis and B cell lymphopoiesis are regulated by α-synuclein, a key player in Parkinson's disease
http://www.sciencedirect.com/science/article/pii/S0171298514001272



Wednesday, September 25, 2013

BY diploid with the same mating factors (in progress)


Kaeberlein and Kennedy has a RLS paper using BY diploid with the same mating factor. Which paper is that?


Saturday, August 10, 2013

E coli aging !!

Suckjoon Jun and Minsu Kim: 

CFU viability is exponential, but RLS is Gompertz. When SOS is knocked out, RLS become exponential.

RLS for E coli is measured in good growth condition, and CLS for E coli is measured in depleted nutrient condition. It is possible that CLS condition overwhelm network buffering and resulted in a network with too little redundancy.  On the other hand,  aging was able to manifest itself during growth, because the external 'insults' are below the 'critical' point for network robustness.

Craig Skinner and Su-ju Lin, 2010 AMB review on CR





CR on E coli aging
http://precedings.nature.com/documents/2071/version/1






Wednesday, May 1, 2013

Examples of Gompertz modeling in cells


Red blood cells, photohemolysis
M. Al-Akhras, A new application of Gompertz function in photohemolysis: the effect of temperature on red blook cell hemolysis phtosensitized by protoporthyrin IX, Med Bio, Eng Comput. 2006, 44:703-710.  Figures are plotted as percentage of dead cells ~ time, i.e., 1-viability ~ time.

E coli growth

Kim S, Nishioka M, Taya M (2004) Promoted proliferation of an SOD-deficient mutant of Escherichia coli under oxidative stress induced by photo excited TiO2. FEMS Microbiol
Lett 236:109–114


Kim et al. used Gompertz function for the growth of Escherichia coli under oxidative stress induced by photoexcited TiO2.