A reference single-cell transcriptomic atlas of human skeletal muscle tissue reveals bifurcated muscle stem cell populations.

Single-cell RNA-sequencing (scRNA-seq) facilitates the unbiased reconstruction of multicellular tissue systems in health and disease. Here, we present a curated scRNA-seq dataset of human muscle samples from 10 adult donors with diverse anatomical locations. We integrated ~ 22,000 single-cell transcriptomes using Scanorama to account for technical and biological variation and resolved 16 distinct populations of muscle-resident cells using unsupervised clustering of the data compendium. These cell populations included muscle stem/progenitor cells (MuSCs), which bifurcated into discrete "quiescent" and "early-activated" MuSC subpopulations. Differential expression analysis identified transcriptional profiles altered in the activated MuSCs including genes associated with aging, obesity, diabetes, and impaired muscle regeneration, as well as long non-coding RNAs previously undescribed in human myogenic cells. Further, we modeled ligand-receptor cell-communication interactions and observed enrichment of the TWEAK-FN14 pathway in activated MuSCs, a characteristic signature of muscle wasting diseases. In contrast, the quiescent MuSCs have enhanced expression of the EGFR receptor, a recognized human MuSC marker. This work provides a new benchmark reference resource to examine human muscle tissue heterogeneity and identify potential targets in MuSC diversity and dysregulation in disease contexts.

Effects of nutritional status on mitochondrial Ca2+ handling / Efeitos do estado nutricional no manejo de Ca2+ mitocondrial

Mitochondria are central players in cell metabolism, responsible for the vast majority of ATP production in most cells. Although originally thought to be passive organelles focused only in keeping cellular ATP at adequate levels, complex interplay between mitochondrial function and cell signaling has been largely recognized over the last decades. Not surprisingly, given their role, changes in nutritional status promoted by chronic interventions like caloric restriction or short-term situations like fasting in animals or nutrient deprivation in cultured cells are one of the main factors that can activate those signaling mechanisms. One particular way in which this mitochondria-cell crosstalk can occur is through mitochondrial Ca2+ handling, a process in which Ca2+ signals generated by the cell are able to translate into elevations in mitochondrial matrix [Ca2+] due to the presence of the mitochondrial Ca2+ uniporter in the organelle. While the impact of mitochondrial Ca2+ handling on cellular function has been widely studied, the conditions which can modulate the process of mitochondrial Ca2+ handling itself are still not well characterized. In this work, we sought to test the effects of different interventions linked to nutritional status on mitochondrial Ca2+ handling. We found that caloric restriction, physiological fasting and modulations of mitochondrial dynamics resulted in modulation of mitochondrial Ca2+ handling through changes in their maximal Ca2+ retention capacity or Ca2+ uptake rates. These changes were, measured by following mitochondrial Ca2+ uptake using different strategies, employing the fluorescent Ca2+ probe Ca2+ Green 5N for experiments in isolated mitochondria and permeabilized cells and the cytosolic probe Fura2-AM in intact cells. Caloric restriction resulted in higher calcium uptake and retention in liver mitochondria, protecting against pathological conditions of Ca2+ overload during ischemia/reperfusion. On the other hand, overnight and short term fasting resulted in lower mitochondrial Ca2+ retention and oxidative phosphorylation capacity in the liver. Modulating mitochondrial morpholoy in C2C12 myoblasts showed that more fragmented mitochondria were less capable of taking up Ca2+, while more fusioned mitochondria showed the opposite phenotype. This modulation in Ca2+ handling through changes in mitochondrial morphology interfered with the process of Store-Operated Ca2+ entry in the cells, showing that these modulations can have impacts in physiological contexts as well. Overall, this work both establishes novel mechanisms of modulation of mitochondrial Ca2+ handling and demonstrates their relevance both in pathology and normal cellular physiology

Mitocôndrias possuem um papel central no metabolismo das células, sendo responsáveis pela maioria da produção de ATP na maioria dos tipos celulares. Embora originalmente se pensasse nas mitocôndrias como organelas estáticas, focadas somente em manter os níveis adequados de ATP na célula, a interação entre a função mitocondrial e a sinalização celular tem sido fortemente reconhecida nas ultimas décadas. Dado este papel, não é surpreendente que mudanças no estado nutricional, tanto crônicas como na restrição calórica quanto em situações como o jejum em animais e a privação de nutrientes em cultura de células foram demonstradas como sendo um dos principais fatores que podem ativar estes mecanismos de sinalização. Uma das formas em que esta interação entre a mitocôndria e a célula ocorre é através do manejo de Ca2+ mitocondrial, um processo em que sinais de Ca2+ gerados pela célula podem resultar em aumentos na [Ca2+] na matriz mitocondrial devido à presença do uniportador de Ca2+ mitocondrial na organelaEmbora o impacto do manejo de Ca2+ mitocondrial na função da célula tenha sido amplamente estudado, a regulação do processo de manejo de Ca2+ mitocondrial em si não é bem conhecida. Neste trabalho, nós nos propusemos a testar os efeitos de diferentes intervenções ligadas ao estado nutricional no manejo de Ca2+ mitocondrial e o possível impacto destas modulações nacapacidade de retenção e na taxa de captação de Ca2+ mitochondrial. As intervenções estudadas foram a restrição calórica, jejum e mudanças na dinâmica mitocondrial, e todas elas resultando em mudanças no manejo de Ca2+ mitocondrial, que foram medidos acompanhando a captação de Ca2+ em mitocôndrias isoladas ou células permeabilizadas utilizando a sonda Ca2+ Green 5N e em células intactas utilizando a sonda de Ca2+ citosólica Fura2-AM. Enquanto a restrição calórica resultou em uma maior capacidade de retenção de Ca2+ e em maiores taxas de captação, protegendo contra as condições patológicas de desregulação de Ca2+ observadas durante a isquemia/reperfusão, o jejum curto ou pela duração da noite resultou em uma diminuição na capacidade de retenção de Ca2+ e na oxidação fosforilativa mitocondriais. As mudanças observadas modulando a dinâmica mitocôndria (feitas utilizando-se mioblastos da linhagem C2C12) revelaram que mitocôndrias mais fragmentadas são menos capazes de captar Ca2+, enquanto mitocôndrias mais fusionadas possuem o fenótipo oposto. Essas mudanças no manejo de Ca2+ mitocondrial interferem com o processo de Store-Operated Ca2+ entry nestas células, demonstrando que essas modulações da captação de Ca2+ mitocondrial também podem ser relevantes em contextos fisiológicos. Em resumo, este trabalho ajudou a estabelecer novos mecanismos de modulação do manejo de Ca2+ mitocondrial que podem ser relevantes tanto em condições patológicas quanto na fisiologia normal das células

Classification of C2C12 cells at differentiation by convolutional neural network of deep learning using phase contrast images.

In the field of regenerative medicine, tremendous numbers of cells are necessary for tissue/organ regeneration. Today automatic cell-culturing system has been developed. The next step is constructing a non-invasive method to monitor the conditions of cells automatically. As an image analysis method, convolutional neural network (CNN), one of the deep learning method, is approaching human recognition level. We constructed and applied the CNN algorithm for automatic cellular differentiation recognition of myogenic C2C12 cell line. Phase-contrast images of cultured C2C12 are prepared as input dataset. In differentiation process from myoblasts to myotubes, cellular morphology changes from round shape to elongated tubular shape due to fusion of the cells. CNN abstract the features of the shape of the cells and classify the cells depending on the culturing days from when differentiation is induced. Changes in cellular shape depending on the number of days of culture (Day 0, Day 3, Day 6) are classified with 91.3% accuracy. Image analysis with CNN has a potential to realize regenerative medicine industry.

Keratin hydrogel carrier system for simultaneous delivery of exogenous growth factors and muscle progenitor cells.

Ideal material characteristics for tissue engineering or regenerative medicine approaches to volumetric muscle loss (VML) include the ability to deliver cells, growth factors, and molecules that support tissue formation from a system with a tunable degradation profile. Two different types of human hair-derived keratins were tested as options to fulfill these VML design requirements: (1) oxidatively extracted keratin (keratose) characterized by a lack of covalent crosslinking between cysteine residues, and (2) reductively extracted keratin (kerateine) characterized by disulfide crosslinks. Human skeletal muscle myoblasts cultured on coatings of both types of keratin had increased numbers of multinucleated cells compared to collagen or Matrigel(TM) and adhesion levels greater than collagen. Rheology showed elastic moduli from 10(2) to 10(5) Pa and viscous moduli from 10(1) to 10(4) Pa depending on gel concentration and keratin type. Kerateine and keratose showed differing rates of degradation due to the presence or absence of disulfide crosslinks, which likely contributed to observed differences in release profiles of several growth factors. In vivo testing in a subcutaneous mouse model showed that keratose hydrogels can be used to deliver mouse muscle progenitor cells and growth factors. Histological assessment showed minimal inflammatory responses and an increase in markers of muscle formation. © 2015 Wiley Periodicals, Inc. J Biomed Mater Res Part B: Appl Biomater, 104B: 864-879, 2016.

Robust nuclear lamina-based cell classification of aging and senescent cells.

Changes in the shape of the nuclear lamina are exhibited in senescent cells, as well as in cells expressing mutations in lamina genes. To identify cells with defects in the nuclear lamina we developed an imaging method that quantifies the intensity and curvature of the nuclear lamina. We show that this method accurately describes changes in the nuclear lamina. Spatial changes in nuclear lamina coincide with redistribution of lamin A proteins and local reduction in protein mobility in senescent cell. We suggest that local accumulation of lamin A in the nuclear envelope leads to bending of the structure. A quantitative distinction of the nuclear lamina shape in cell populations was found between fresh and senescent cells, and between primary myoblasts from young and old donors. Moreover, with this method mutations in lamina genes were significantly distinct from cells with wild-type genes. We suggest that this method can be applied to identify abnormal cells during aging, in in vitro propagation, and in lamina disorders.