Imaging mass spectrometry combines the chemical specificity and parallel detection of mass spectrometry with microscopic imaging capabilities. The ability to simultaneously obtain images from all analytes detected, from atomic to macromolecular ions, allows the analyst to probe the chemical organization of a sample and to correlate this with physical features. The sensitivity of the ionization step, sample preparation, the spatial resolution, and the speed of the technique are all important parameters that affect the type of information obtained. Recently, significant progress has been made in each of these steps for both secondary ion mass spectrometry (SIMS) and matrix-assisted laser desorption/ionization (MALDI) imaging of biological samples. Examples demonstrating localization of proteins in tumors, a reduction of lamellar phospholipids in the region binding two single celled organisms, and sub-cellular distributions of several biomolecules have all contributed to an increasing upsurge in interest in imaging mass spectrometry. Here we review many of the instrumental developments and methodological approaches responsible for this increased interest, compare and contrast the information provided by SIMS and MALDI imaging, and discuss future possibilities.

Imaging mass spectrometry

Niemann-Pick type C2 disease (NP-C2) is a fatal hereditary disorder of unknown etiology characterized by defective egress of cholesterol from lysosomes. Here we show that the disease is caused by a deficiency in HE1, a ubiquitously expressed lysosomal protein identified previously as a cholesterol-binding protein. HE1 was undetectable in fibroblasts from NP-C2 patients but present in fibroblasts from unaffected controls and NP-C1 patients. Mutations in the HE1 gene, which maps to chromosome 14q24.3, were found in NP-C2 patients but not in controls. Treatment of NP-C2 fibroblasts with exogenous recombinant HE1 protein ameliorated lysosomal accumulation of low density lipoprotein-derived cholesterol.

https://science.sciencemag.org/content/sci/290/5500/2298.full.pdf

Identification of HE1 as the Second Gene of Niemann-Pick C Disease

Matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) is emerging as a powerful tool for investigating the distribution of molecules within biological systems through the direct analysis of thin tissue sections. Unique among imaging methods, MALDI-IMS can determine the distribution of hundreds of unknown compounds in a single measurement. We discuss the current state of the art of MALDI-IMS along with some recent applications and technological developments that illustrate not only its current capabilities but also the future potential of the technique to provide a better understanding of the underlying molecular mechanisms of biological processes.

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MALDI imaging mass spectrometry: molecular snapshots of biochemical systems.

Most mammalian genes produce multiple distinct messenger RNAs through alternative splicing, but the extent of splicing conservation is not clear. To assess tissue-specific transcriptome variation across mammals, we sequenced complementary DNA from nine tissues from four mammals and one bird in biological triplicate, at unprecedented depth. We find that while tissue-specific gene expression programs are largely conserved, alternative splicing is well conserved in only a subset of tissues and is frequently lineage-specific. Thousands of previously unknown, lineage-specific, and conserved alternative exons were identified; widely conserved alternative exons had signatures of binding by MBNL, PTB, RBFOX, STAR, and TIA family splicing factors, implicating them as ancestral mammalian splicing regulators. Our data also indicate that alternative splicing often alters protein phosphorylatability, delimiting the scope of kinase signaling.

Evolutionary Dynamics of Gene and Isoform Regulation in Mammalian Tissues

1.1. Mass Spectrometry
A mass spectrometer is described as the smallest weighing scale in the world ever used.1 Mass spectrometry (MS) is a unique technique that has an interdisciplinary nature, which freely crosses the borders of physics, chemistry and biology. Mass spectrometry makes a great scientific tool due to its capabilities to determine the mass of large biomolecular complexes, individual biomolecules, small organic molecules as well as single atoms and their isotopes. Right from the time of its invention in the first decade of the 20th century, mass spectrometry has undergone tremendous improvements in terms of its sensitivity, resolution and mass range. It currently finds applications in all scientific disciplines such as chemistry, physics, biology, pharmacology, medicine, biochemistry and bio-agro-based industry.

Introduction of “soft” ionization sources such as electrospray ionization (ESI) by J.B. Fenn et al.2 and matrix-assisted laser desorption/ionization (MALDI) by M. Karas et al.3 in 1980s revolutionized mass spectrometry as it offered the capability to analyze large intact biomolecules. As such MS became an irreplaceable tool for the biological sciences. The development of both ESI and MALDI made possible the ionization of smaller biomolecules such as drugs and metabolites as well larger biomolecules such as lipids, peptides and even proteins.2,4 The molecular weight (Mw) ranges we use in this review are defined as follows. The low Mw range includes elements and molecules from 1 to 500 Da. Molecules with Mw between 500 and 2000 Da fall in the medium Mw range. All molecules with Mw > 2000 Da are considered to be part of the high molecular weight class. It goes beyond the scope of this review to cover all developments in MS. Rather this review focuses on one of the latest, rapidly developing innovations in MS namely mass spectrometric imaging (MSI). This young technique takes benefit from all methodological and technological developments in general MS over the last decades. Over the last twenty years MSI has transformed from an esoteric, specialist technology studied by few researchers only to a technique that now finds itself at the center stage of mainstream MS. Over the last years the technology has matured to find applications in many different areas, with instrument developments taken up by all MS instrument manufacturers resulting in a rapid rise of the number of research groups active in this area. A thorough review of the area is therefore timely and needed to offer a starting point for all newcomers to the field. In this paper we describe and review approximately 20 years of MSI developement from the perspective of its application to biomedical imaging. We will emphasize the key research steps and pitfalls that determine the outcome of biological applications of this relatively new label free biomolecular imaging technique in life sciences.

/pdf/mass-spectrometric-imaging-for-biomedical-tissue-analysis-2yvg73uyj5.pdf

Mass spectrometric imaging for biomedical tissue analysis.

Proteins present in and secreted into the lumen of various regions of the stallion epididymis were characterized qualitatively and quantitatively by two-dimensional electrophoresis. Using this proteomic approach, 201 proteins were found in the lumen and 117 were found that were secreted by the epithelium in various parts of the organ. Eighteen proteins made up 92.6% of the total epididymal secretory activity, lactoferrin (41.2%) and clusterin (24.8%) being the most abundant. Procathepsin D, HE1/CTP (cholesterol transfer protein), GPX (glutathione peroxidase), beta-N-acetyl-hexosaminidase, and PGDS (prostaglandin D2 synthase) were the other major compounds secreted. The most abundant proteins found in the luminal fluid were albumin and the secreted proteins: lactoferrin, PGDS, GPX, HE1/CTP, and hexosaminidase. Three main secretory epididymal regions were identified from the protein pattern, i.e., regions E0-E2, E3-E5, and E6-E9. Region E0-E2 was characterized by the secretion of clusterin (53%), PGDS (44%), and GPX (6%). Region E3-E5 had the highest number of secreted proteins, the highest protein concentrations (60-80 mg/ml), and the highest spermatocrit value (85%). Lactoferrin (60% in E4), clusterin (29% in E3), hexosaminidase (10% in E3), and procathepsin D (6.9% in E4) were the most abundant proteins in this region. Region E6-E9, in which few region-specific secreted compounds were found, was characterized by a high quantity of lactoferrin in the luminal fluid (2-14 mg/ml). Comparison between the secretion of the major proteins and their concentrations in the lumen throughout the organ showed that the behavior of each protein is specific, in particular for the three isoforms of clusterin.

https://bioone.org/journals/biology-of-reproduction/volume-62/issue-6/biolreprod62.6.1790/Stallion-Epididymal-Fluid-Proteome--Qualitative-and-Quantitative-Characterization-Secretion/10.1095/biolreprod62.6.1790.pdf

Stallion epididymal fluid proteome: qualitative and quantitative characterization; secretion and dynamic changes of major proteins.

Different aspects of matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) have been used as discovery tools to obtain global and time-correlated information on the local proteomic composition of the sexually mature mouse epididymis from both qualitative and semiquantitative points of view. Tissue sections and laser captured microdissected cells and secretory products were analyzed by MALDI-MS and from the recovered protein profiles, over 400 different proteins were monitored. Over 50 of these, some of which have been identified, displayed regionalized behavior from caput to cauda within the epididymis. Combining the information obtained from high-resolution imaging mass spectrometry and laser captured microdissection experiments, numerous proteins were localized within the epididymis at the cellular level. Furthermore, from the signal intensities observed in the different protein profiles organized in space, semiquantitative information for each protein was obtained.

Profiling and imaging proteins in the mouse epididymis by imaging mass spectrometry.

This review considers the role of proteins secreted by the epididymis on post-testicular sperm maturation and storage. Two-dimensional gels show that 150 to 200 proteins are secreted into the epididymal lumen. Most are secreted in relatively small amounts; in rams, for example, fewer than ten contribute 90% of the total secretion and only two contribute 52% of the total protein secreted. Most of the proteins are confined to specific regions of the epididymis. The changing pattern of protein secretion along the epididymis corresponds to change in surface protein on spermatozoa, but no epididymal proteins have been identified that appear to be directly involved in modifying the sperm membrane. Most of the major proteins that have been identified seem to be playing a homeostatic role in maintaining the epididymal milieu for spermatozoa.

Role of epididymal secretory proteins in sperm maturation with particular reference to the boar.

Glial cell-line-derived neurotropic factor (GDNF) and its receptors glial cell-line-derived neurotropic factor alpha (GFR1alpha) and rearranged during transformation (RET) have been localized in the rat testis during postnatal development The three mRNAs, and GDNF and GFR1alpha proteins were detected in testis extracts from 1- to 90-day-old rats by reverse transcriptase PCR and Western blotting respectively The three mRNAs were present in Sertoli cells from 20- and 55-day-old rats, pachytene spermatocytes (PS), and round spermatids (RS) The GDNF and GFR1alpha proteins were detected in PS, RS, and Sertoli cells GDNF and GFR1alpha were also detected using flow cytometry in spermatogonia and preleptotene spermatocytes, and in secondary spermatocytes The localization of GDNF and GFR1alpha in germ and Sertoli cells was confirmed by immunocytochemistry The hypothesis that GDNF may control DNA synthesis of Sertoli cells and/or spermatogonia in the immature rat was addressed using cultures of seminiferous tubules from 7- to 8-day-old rats Addition of GDNF for 48 h resulted in a twofold decrease in the percentage of spermatogonia able to duplicate DNA, whereas Sertoli cells were not affected These results are consistent with a role of GDNF in inhibiting the S-phase entrance of a large subset of differentiated type A spermatogonia, together with an enhancing effect of the factor on a small population of undifferentiated (stem cells) spermatogonia Moreover, the wide temporal and spatial expression of GDNF and its receptors in the rat testis suggest that it might act at several stages of spermatogenesis

/pdf/glial-cell-line-derived-neurotropic-factor-and-its-receptors-jvul4tmyg9.pdf

Glial cell-line-derived neurotropic factor and its receptors are expressed by germinal and somatic cells of the rat testis

Microsequencing after two-dimensional electrophoresis revealed a major protein, glutathione-independent prostaglandin D 2 synthase (PGDS) in the anterior epididymal region fluid of the ram and stallion. In this epididymal region, PGDS was a polymorphic compound with a molecular mass around 30 kDa and a range of pI from 4 to 7. PGDS represented 15% and 8% of the total luminal proteins present in this region in the ram and stallion, respectively. The secretion of the protein as judged by in vitro biosynthesis, and the presence of its mRNA as studied by Northern blot analysis, were limited to the proximal caput epididymidis. Using a specific polyclonal antibody raised against a synthetic peptide, PGDS was found throughout the epididymis, decreasing in concentration toward the cauda region. PGDS was also detected in the testicular fluid and seminal plasma by Western blotting. Castration and efferent duct ligation in the ram led to a decrease in PGDS mRNA and secretion. PGDS mRNA was not detected in the stallion 1 mo after castration, and it was restored by testosterone supplementation. This study showed that PGDS is present in the environment of spermatozoa throughout the male genital tract. Its function in the maturation and/or protection of spermatozoa is unknown.

Sophie Fouchécourt

Papers

Stallion epididymal fluid proteome: qualitative and quantitative characterization; secretion and dynamic changes of major proteins.

Profiling and imaging proteins in the mouse epididymis by imaging mass spectrometry.

Role of epididymal secretory proteins in sperm maturation with particular reference to the boar.

Glial cell-line-derived neurotropic factor and its receptors are expressed by germinal and somatic cells of the rat testis

Glutathione-Independent Prostaglandin D2 Synthase in Ram and Stallion Epididymal Fluids: Origin and Regulation