Porcine Single Nucleotide Polymorphism (SNP) Development and Population Structure of Pigs Assessed by Validated SNPs

In this study, we identified porcine single nucleotide polymorphisms (SNPs) by aligning eight sequences generated with two approaches: amplification of 665 intronic regions using one sample from each of eight breeds, including three East Asian pigs, and amplification of 289 3'-UTR regions using two samples from each of four major commercial breeds. The 1,760 and 599 SNPs were validated using two 384-sample DNA panels by matrix-assisted laser desorption ionization time-of-flight mass spectrometry. The phylogenetic tree and Structure analyses classified the pigs into two large clusters: Euro-American and East Asian populations. The membership proportions, however, differed between inferred clusters for K = 2 generated by the two approaches. With intronic SNPs, Euro-American breeds constituted about 100% of the Euro-American cluster, but with 3'-UTR SNPs, about 17% of the East Asian cluster comprised five Euro-American breeds. The differences in the SNP discovery panels may affect population structure found in study panels of large samples.     

Bioluminescence and magnetic resonance imaging of macrophage homing to experimental abdominal aortic aneurysms

Macrophage infiltration is a prominent feature of abdominal aortic aneurysm (AAA) progression. We used a combined imaging approach with bioluminescence (BLI) and magnetic resonance imaging (MRI) to study macrophage homing and accumulation in experimental AAA disease. Murine AAAs were created via intra-aortic infusion of porcine pancreatic elastase. Mice were imaged over 14 days after injection of prepared peritoneal macrophages. For BLI, macrophages were from transgenic mice expressing luciferase. For MRI, macrophages were labeled with iron oxide particles. Macrophage accumulation during aneurysm progression was observed by in situ BLI and by in vivo 7T MRI. Mice were sacrificed after imaging for histologic analysis. In situ BLI (n = 32) demonstrated high signal in the AAA by days 7 and 14, which correlated significantly with macrophage number and aortic diameter. In vivo 7T MRI (n = 13) at day 14 demonstrated T?* signal loss in the AAA and not in sham mice. Immunohistochemistry and Prussian blue staining confirmed the presence of injected macrophages in the AAA. BLI and MRI provide complementary approaches to track macrophage homing and accumulation in experimental AAAs. Similar dual imaging strategies may aid the study of AAA biology and the evaluation of novel therapies.     

Species identification of upstream fatminnow <Emphasis Type="Italic">Rhynchocypris oxycephalus</Emphasis> and downstream fatminnow <Emphasis Type="Italic">Rhynchocypris lagowskii</Emphasis>, based on PCR-RFLP of mitochondrial DNA

The morphological similarity between upstream fatminnow Rhynchocypris oxycephalus and downstream fatminnow Rhynchocypris lagowskii makes it difficult to discriminate accurately between these species in rivers where they coexist. For easy and precise identification of these two species, we developed a genetic discrimination method based on PCR-RFLP analysis for specimens from the Inohzawa River watershed in the Izu Peninsula, central Honshu, Japan. This genetic method was applied to the species identification of the fatminnows from two other watersheds, the Kano and Kawazu Rivers, flowing across the peninsula from north to south. We present the genetic evidence for the restricted distribution of R. oxycephalus and the ubiquitous distribution of R. lagowskii in the peninsula.     

Fat-derived factor omentin stimulates endothelial cell function and ischemia-induced revascularization via endothelial nitric oxide synthase-dependent mechanism

Obesity-related diseases are associated with vascular dysfunction and impaired revascularization. Omentin is a fat-derived secreted protein, which is down-regulated in association with obese complications. Here, we investigated whether omentin modulates endothelial cell function and revascularization processes in vitro and in vivo. Systemic delivery of an adenoviral vector expressing omentin (Ad-omentin) enhanced blood flow recovery and capillary density in ischemic limbs of wild-type mice in vivo, which were accompanied by increased phosphorylation of Akt and endothelial nitric oxide synthase (eNOS). In cultured human umbilical vein endothelial cells (HUVECs), a physiological concentration of recombinant omentin protein increased differentiation into vascular-like structures and decreased apoptotic activity under conditions of serum starvation. Treatment with omentin protein stimulated the phosphorylation of Akt and eNOS in HUVECs. Inhibition of Akt signaling by treatment with dominant-negative Akt or LY294002 blocked the stimulatory effects of omentin on differentiation and survival of HUVECs and reversed omentin-stimulated eNOS phosphorylation. Pretreatment with the NOS inhibitor also reduced the omentin-induced increase in HUVEC differentiation and survival. Omentin protein also stimulated the phosphorylation of AMP-activated protein kinase in HUVECs. Transduction with dominant-negative AMP-activated protein kinase diminished omentin-induced phosphorylation of Akt and omentin-stimulated increase in HUVEC differentiation and survival. Of importance, in contrast to wild-type mice, systemic administration of Ad-omentin did not affect blood flow in ischemic muscle in eNOS-deficient mice in vivo. These data indicate that omentin promotes endothelial cell function and revascularization in response to ischemia through its ability to stimulate an Akt-eNOS signaling pathway.     

Vitreous preservation of articular cartilage from cryoinjury in rabbits

Frozen osteoarticular grafts treated with liquid nitrogen are utilized for joint reconstruction after tumor resection, but the joints may subsequently develop osteoarthritic changes. To preserve articular cartilage from cryoinjury, we modified a vitrification method utilized for embryo cryopreservation and demonstrated in vitro that our vitrification protocol was effective for protecting cartilage from cryoinjury. In this study, we investigated in vivo whether this vitrification method could protect against osteoarthritic changes in articular cartilage. Osteochondral plugs were obtained from the distal femur of rabbits. These grafts were divided into 3 groups: Fresh group (F-group), non-vitrification group (N-group), and vitrification group (V-group). After treatment, the plugs were re-implanted as autografts. Histological findings, chondrocyte viability, and ultrastructural examinations were examined 6, 12, and 24weeks after implantation. Histological findings of chondrocytes for the V-group showed no significant difference from those of the F-group at any time point except at 24weeks postimplantation at the non-weight bearing site (p<0.05). Viability of chondrocyte showed no significant difference from those of the F-group except at 12weeks postimplantation at the bearing site (p<0.05). In contrast, viable cells disappeared from the N-group and histology and viability significantly differed between the N-group and the V-group. Transmission electron microscopy demonstrated preservation of chondrocyte structure in the V-group and the F-group, but chondrocytes of the N-group were abnormally electron dense. Our vitrification method was effective in protecting chondrocytes from cryoinjury that might lead to cartilage degeneration. Reconstructing joints with osteoarticular grafts containing living cartilage may help to avert osteoarthritic changes. Our vitrification method could prove useful for reconstruction with frozen tumor-containing autografts and for long-term storage of living cartilage for allografts.     

Surface plasmon resonance and NMR analyses of anti Tn-antigen MLS128 monoclonal antibody binding to two or three consecutive Tn-antigen clusters

Tn-antigens are tumour-associated carbohydrate antigens that are involved in metastatic processes and are associated with a poor prognosis. MLS128 monoclonal antibody recognizes the structures of two or three consecutive Tn-antigens (Tn2 or Tn3). Since MLS128 treatment inhibits colon and breast cancer cell growth [Morita, N., Yajima, Y., Asanuma, H., Nakada, H., and Fujita-Yamaguchi, Y. (2009) Inhibition of cancer cell growth by anti-Tn monoclonal antibody MLS128. Biosci. Trends 3, 32-37.], understanding the interaction between MLS128 and Tn-clusters may allow us to the development of novel cancer therapeutics. Although MLS128 was previously reported to have specificity for Tn3 rather than Tn2, similar levels of Tn2/Tn3 binding were unexpectedly observed at 37°C. Thus, thermodynamic analyses were performed via surface plasmon resonance (SPR) using synthetic Tn2- and Tn3-peptides at 10, 15, 20, 25 and 30°C. SPR results revealed that MLS128's association constants for both antigens were highly temperature dependent. Below 25°C MLS128's association constant for Tn3-peptide was clearly higher than that for Tn2-peptide. At 30°C, however, the association constant for Tn2-peptide was higher than that for Tn3-peptide. This reversal of affinity is due to the sharp increase in K(d) for Tn3. These results were confirmed by NMR, which directly measured MLS128-Tn binding in solution. This study suggested that thermodynamic control plays a critical role in the interaction between MLS128/Tn2 and MLS128/Tn3.     

Formation of Two Intramolecular Disulfide Bonds Is Necessary for ApoA-I-dependent Cholesterol Efflux Mediated by ABCA1

ABCA1 plays a major role in cholesterol homeostasis and high density lipoprotein (HDL) metabolism. ABCA1 contains disulfide bond(s) between its N- and C-terminal halves, but it remains unclear whether disulfide bond formation is important for the functions of ABCA1 and which cysteines are involved in disulfide bond formation. To answer these questions, we constructed >30 ABCA1 mutants in which 16 extracellular domain (ECD) cysteines were replaced with serines and examined disulfide bond formation, apoA-I binding, and HDL formation in these mutants. From the single cysteine replacements, two cysteines (Cys⁷⁵ and Cys³⁰⁹) in ECD1 were found to be essential for apoA-I binding. In contrast, in ECD2, only Cys¹⁴⁷⁷ was found to be essential for HDL formation, and no single cysteine replacement impaired apoA-I binding. The concurrent replacement of two cysteines, Cys¹⁴⁶³ and Cys¹⁴⁶⁵, impaired apoA-I binding and HDL formation, suggesting that four of five extracellular cysteines (Cys⁷⁵, Cys³⁰⁹, Cys¹⁴⁶³, Cys¹⁴⁶⁵, and Cys¹⁴⁷⁷) are involved in these functions of ABCA1. Trypsin digestion experiments suggested that one disulfide bond is not sufficient and that two intramolecular disulfide bonds (between Cys⁷⁵ and Cys³⁰⁹ in ECD1 and either Cys¹⁴⁶³ or Cys¹⁴⁶⁵ and Cys¹⁴⁷⁷ in ECD2) are required for ABCA1 to be fully functional.Maintenance of cellular cholesterol homeostasis is important for normal human physiology; its disruption can lead to a variety of pathological conditions, including cardiovascular disease (1). ABCA1 (ATP-binding cassette protein A1), a key factor in cholesterol homeostasis, mediates the secretion of cellular free cholesterol and phospholipids to an extracellular acceptor, apoA-I, to form high density lipoprotein (HDL)² (2, 3). HDL formation is the only known pathway for the elimination of excess cholesterol from peripheral cells. Defects in ABCA1 cause Tangier disease (4–6), in which patients have a near absence of circulating HDL, prominent cholesterol ester accumulation in tissue macrophages, and premature atherosclerotic vascular disease (1, 7).ABCA1 is a member of the ABCA subclass of ABC transporters, which contain the basic architecture of the “full-length” ABC transporters organized into two tandemly arranged halves. Each half contains several transmembrane α-helices (TMs), which provide a translocation pathway, followed by a cytoplasmic nucleotide-binding domain, which hydrolyze ATP. In the case of “half-size” ABC transporters, such as ABCG1, ABCD1, TAP1/TAP2 (transporter associated with antigen processing), and the bacterial homolog Sav1866, they dimerize to form the full transporter. Crystallographic analysis of the bacterial homolog Sav1866 revealed that the TMs of one subunit are closely related to the TMs of the other subunit, forming two “wings” in an outward-facing conformation (8).When ABCA1 is partially digested by trypsin, ABCA1 is cleaved at site A, just C-terminal to TM6, and at site B, just N-terminal to TM7, to produce four fragments of 170 and 150 kDa and subsequently of 125 and 110 kDa (Fig. 1A) (9). When these fragments are analyzed by SDS-PAGE under nonreducing conditions, they co-migrate with undigested ABCA1. These results suggest that the N- and C-terminal halves of ABCA1 are connected by disulfide bond(s), as reported for ABCA4 (ABCR) (10). The ABCA subclass is distinguished from other ABC transporter subclasses by the presence of large extracellular domains (ECDs) (Fig. 1A) (11, 12). ECD1 and ECD2 of ABCA1 contain nine and five cysteine residues, respectively, and each connecting loop between TM5 and TM6 and between TM11 and TM12 contains a cysteine residue. These cysteine residues were assigned numbers, C1 to C16, based on their distance from the N terminus (Fig. 1A). These cysteine residues are well conserved among ABCA1, ABCA4, and ABCA7 (Fig. 1B). All of the cysteine residues in ECD1 are conserved between ABCA1 and ABCA4, and seven cysteine residues (except C4 and C5) are conserved in ABCA7. All five of the cysteine residues in ECD2 are conserved between ABCA1 and ABCA4, and three cysteine residues (except C11 and C12) are conserved in ABCA7. Because ABCA7, like ABCA1, mediates apoA-I-dependent lipid efflux (13, 14), conserved cysteine residues might be important for its function. Indeed, the Tangier disease mutation C1477R has been reported to abolish apoA-I binding and HDL formation (15–17), and several missense mutations in cysteine residues within ECD1 (C54Y, C75G) and ECD2 (C1488R, C1490Y) of ABCA4 have been linked to Stargardt disease (18–21). It remains unclear, however, whether disulfide bond formation is important for the proper folding and/or the functions of ABCA subclass proteins.Open in a separate windowFIGURE 1.Structural features of ABCA1. A, topological model for human ABCA1. ABCA1 consists of 12 transmembrane α-helices (TM1–TM12) and two large ECDs. ECD1 and ECD2 contain nine and five cysteine residues, respectively, and each connecting loop between TM5 and TM6 and between TM11 and TM12 contains a cysteine residue. These cysteine residues were assigned numbers, from C1 to C16, based on their distance from the N terminus. ABCA1 is cleaved at sites A and B by limited trypsin digestion. B, amino acid sequence alignment of ECDs of human ABCA1, ABCA4, and ABCA7. Conserved cysteine residues are indicated in black boxes.In this study, we analyzed which cysteine residues are involved in disulfide bond formation and examined whether disulfide bond formation is necessary for the functions of ABCA1. Cysteine substitution experiments suggested that two disulfide bonds are formed between C2 and C6 in ECD1 and between either C13 or C14 and C15 in ECD2 and that this two-disulfide bond formation is necessary for apoA-I-dependent cholesterol efflux by ABCA1.     

Monitoring of hormonal drug effect in a single breast cancer cell using an estrogen responsive GFP reporter vector delivered by a nanoneedle

In this study, we have evaluated a sensor system for a hormonal drug effect in a single cell level using a novel low invasive single cell DNA delivery technology using a nanoneedle. An estrogen responsive GFP reporter vector (pEREGFP9) was constructed and its estrogenic response activity was confirmed in breast cancer cells (MCF-7) using lipofection as the means of transferring the vector to the cells. The pEREGFP9 vector was delivered to a single MCF-7 using a nanoneedle and the effect of ICI 182,780, which is an antagonist of estrogen, was observed using the GFP expression level. By ICI 182,780 treatment, the fluorescence intensity of the GFP was decreased by 30-50% within 24h. This technology is the very first trial of single cell diagnosis and we are looking forward to applying it to precious single cell diagnosis in medical fields.     

Calcium elevation-dependent and attenuated resting calcium-dependent abscisic acid induction of stomatal closure and abscisic acid-induced enhancement of calcium sensitivities of S-type anion and inward-rectifying K+ channels in Arabidopsis guard cells

Stomatal closure in response to abscisic acid depends on mechanisms that are mediated by intracellular [Ca²⁺] ([Ca²⁺]_i), and also on mechanisms that are independent of [Ca²⁺]_i in guard cells. In this study, we addressed three important questions with respect to these two predicted pathways in Arabidopsis thaliana. (i) How large is the relative abscisic acid (ABA)‐induced stomatal closure response in the [Ca²⁺]_i‐elevation‐independent pathway? (ii) How do ABA‐insensitive mutants affect the [Ca²⁺]_i‐elevation‐independent pathway? (iii) Does ABA enhance (prime) the Ca²⁺ sensitivity of anion and inward‐rectifying K⁺ channel regulation? We monitored stomatal responses to ABA while experimentally inhibiting [Ca²⁺]_i elevations and clamping [Ca²⁺]_i to resting levels. The absence of [Ca²⁺]_i elevations was confirmed by ratiometric [Ca²⁺]_i imaging experiments. ABA‐induced stomatal closure in the absence of [Ca²⁺]_i elevations above the physiological resting [Ca²⁺]_i showed only approximately 30% of the normal stomatal closure response, and was greatly slowed compared to the response in the presence of [Ca²⁺]_i elevations. The ABA‐insensitive mutants ost1‐2, abi2‐1 and gca2 showed partial stomatal closure responses that correlate with [Ca²⁺]_i‐dependent ABA signaling. Interestingly, patch‐clamp experiments showed that exposure of guard cells to ABA greatly enhances the ability of cytosolic Ca²⁺ to activate S‐type anion channels and down‐regulate inward‐rectifying K⁺ channels, providing strong evidence for a Ca²⁺ sensitivity priming hypothesis. The present study demonstrates and quantifies an attenuated and slowed ABA response when [Ca²⁺]_i elevations are directly inhibited in guard cells. A minimal model is discussed, in which ABA enhances (primes) the [Ca²⁺]_i sensitivity of stomatal closure mechanisms.     

Probabilistic Estimation of Regional Dietary Exposure to Dioxins in Fish in Japan on the Basis of Market and Fish Distribution Network Data

Dietary consumption of fish is the greatest contributor to dioxin exposure of the general population in Japan. Unlike with other routes of exposure to dioxins, exposure via foodstuffs does not necessarily occur from local sources. Clarifying the distribution of fish from the catch area to local markets helps to control dioxin exposure from the head of the distribution chain down. We analyzed the data from 30 major central wholesale fish markets to determine both the market share of fish by catch area and the market share of major fish types in fish consumption markets. Probabilistic estimation of dietary exposure of the general population to dioxins in fish was conducted in seven regions in Japan. Probabilistic density functions (PDFs) were assigned to express the variability of data from monitoring of dioxin levels in fish by catch area or by fish type. From histograms of dioxin levels in fish by catch area, the mean and 5th to 95th percentile range of dietary exposure to dioxins in the region with the largest 95th percentile value were estimated, respectively, as 55.5 and 12.9–172.9 pg-TEQ/day. No statistically significant differences in dietary exposure to dioxins in fish were observed among the seven regions. Some specific coastal catch areas and some types of fish that had a greater impact than others on exposure were pinpointed for each region.