bluuebunny/crossref_metadata_2025 huggingface dataset:
Physiologically adaptive changes of the L5 afferent neurogram and of the rat soleus EMG activity during 14 days of hindlimb unloading and recovery
Authors: De-Doncker L. , Kasri M. , Picquet F. , Falempin M.
Published: December 2005

The hindlimb unloading rat model (HU, Morey's model) is usually used to mimic and study neuromuscular changes that develop during spaceflights. This Earth-based model of microgravity induces a muscular atrophy of the slow postural muscle of hindlimbs, such as the soleus, a loss of strength,modifications of contraction kinetics, changes in histochemical and electrophoretical profiles and modifications of the tonic EMG activity. It has been suggested in the literature that some of these neuromuscular effects were due to a reduction of afferent feedback during HU. However, no direct data have confirmed this hypothesis. The aim of this study was to clearly establish if changes of the L5 afferent neurogram are closely related to the soleus EMG activity during and after 14 days of HU.

Immediately after HU, the EMG activity of the soleus muscle disappeared and was associated with a decrease in the afferent neurogram. The soleus electromyographic and afferent activities remained lower than the pre-suspension levels until the sixth day of HU and were recovered between the sixth and the ninth day. On the twelfth and fourteenth days, they were increased beyond the pre-suspension levels. During the first recovery day,these activities were significantly higher than those on the fourteenth HU day and returned to the pre-suspension levels between the third and sixth recovery days.

To conclude, our study directly demonstrates that the HU conditions cannot be considered as a functional deafferentation, as suggested in the literature,but only as a reduction of afferent information at the beginning of the HU period.
Composite structure of the crystalline epicuticular wax layer of the slippery zone in the pitchers of the carnivorous plant Nepenthes alata and its effect on insect attachment
Authors: Gorb E. , Haas K. , Henrich A. , Enders S. , Barbakadze N. , Gorb S.
Published: December 2005

The slippery zone situated below the peristome inside pitchers of most carnivorous plants from the genus Nepenthes is covered with a thick layer of epicuticular wax. This slippery zone is reported to play a crucial role in animal trapping and prey retention. In N. alata, the wax coverage consists of two clearly distinguished layers. These layers differ in their structure, chemical composition and mechanical properties, and they reduce the insect attachment in different ways. The lower layer resembles foam, composed of interconnected membraneous platelets protruding from the surface at acute angles. The upper layer consists of densely placed separate irregular platelets, located perpendicular to the subjacent layer. Crystals of the upper layer bear small stalks, directed downwards and providing connections to the lower layer. These morphological distinctions correlate with differences in the chemical composition of waxes. The compound classes of alkanes, aldehydes, primary alcohols, free fatty acids, esters and triterpenoids occurred in extracts from both wax layers, but in different proportions. Chain length distributions in aliphatics were different in extracts from the lower and the upper wax layers. Waxes of the upper and lower layers exhibited different mechanical properties: wax of the lower layer is harder and stiffer than that of the upper layer. Moreover, crystals of the upper layer are brittle and may be easily exfoliated or broken to tiny pieces. Laboratory experiments using tethered insects showed that both wax layers reduce the attachment force of insects. It is assumed that a decrease in insect attachment on the two distinct wax layers is provided by the two different mechanisms: (1) crystals of the upper wax layer contaminate insects'adhesive pads; (2) the lower wax layer leads to a reduction of the real contact area of insects' feet with the plant surface.
Long-term repeatability makes basal metabolic rate a likely heritable trait in the zebra finchTaeniopygia guttata
Authors: Rønning Bernt , Moe Børge , Bech Claus
Published: December 2005

Basal metabolic rate (BMR) is a physiological trait believed to show adaptational changes. Few studies have tested whether BMR shows stable between-individual variations. Repeatability indicates that the trait might be heritable and therefore a possible target for natural selection. We tested whether BMR was repeatable over a considerable time of the lifespan of a small passerine bird: the zebra finch Taeniopygia guttata. BMR was measured six times over a 2.5 year period in captive zebra finches. BMR residuals showed significant repeatabilities over a short (1.5 months) and a long (2.5 years) period for each sex as well as for both sexes pooled. In contrast to earlier studies on metabolism, our calculated repeatability (R) did not change significantly from the short to the long period in either males(R from 0.501 to 0.465), females (R from 0.413 to 0.522) or the pooled data (R from 0.571 to 0.567). Our results show that there are consistent between-individual variations in BMR on which natural selection can work, provided that this trait is heritable.
Testosterone has opposite effects on male growth in lizards(Sceloporusspp.) with opposite patterns of sexual size dimorphism
Authors: Cox Robert M. , John-Alder Henry B.
Published: December 2005

Sexual size dimorphism (SSD) has received considerable attention from evolutionary biologists, but relatively little is known about the physiological mechanisms underlying sex differences in growth that lead to SSD. Testosterone (T) stimulates growth in many male-larger vertebrates, but inhibits growth in the female-larger lizard Sceloporus undulatus. Thus, opposite patterns of SSD may develop in part because of underlying differences in the hormonal regulation of male growth. In the present study,we examined the effects of T on male growth in two sympatric congeners with opposite patterns of SSD (S. virgatus: female-larger; S. jarrovii: male-larger). During the mating season, yearling males of both species have higher plasma T levels than females, but whereas yearling males of S. virgatus grow only half as fast as females, yearling males of S. jarrovii grow more quickly than females. Thus, we hypothesized that T inhibits growth in yearling S. virgatus males, but promotes growth in yearling S. jarrovii males. In support of this hypothesis,we found that castrated (CAST) males of S. virgatus grew faster than castrated males given T implants (TEST). In contrast, TEST males of S. jarrovii grew faster than CAST males. Our results provide the first direct evidence for opposite effects of T on male growth in closely related species with opposite patterns of SSD. We speculate that growth inhibition by T reflects an energetic trade-off between growth and reproductive investment,and propose that such `costs' of male reproduction may help explain the evolution of female-larger SSD in Sceloporus.
In vivo mechanical properties of the human Achilles tendon during one-legged hopping
Authors: Lichtwark G. A. , Wilson A. M.
Published: December 2005

Compliant tendons act as energy stores, which benefit the energetics and power output of a muscle–tendon unit. However the compliance of tendon and the material properties may vary between individuals and hence alter the energy storing capacity of the tendon. We aimed to determine the in vivo Achilles tendon (AT) stress and strain during one-legged hopping and hence the contribution of elastic recoil to mechanical energy changes. We simultaneously measured the length of the Achilles tendon from the muscle–tendon junction to the insertion on the calcaneous and the approximate AT force in ten male participants. The position of the muscle–tendon junction was determined using ultrasound images that were projected into three-dimensional space. Achilles tendon force was measured using inverse dynamics. The results demonstrated that one-legged hopping elicited high tendon strains and that the force–length relationship of the whole tendon is relatively linear, particularly at high strains. The stiffness, elastic modulus and hysteresis varied across the population(inter-quartile range of 145–231 N mm–1,0.67–1.07 GPa and 17–35%, respectively). These values are within the reported biological range. An average of 38 J of energy was recovered from the elastic recoil of the tendon, which contributes 16% of the total average mechanical work of the hop (254 J). The high strains measured here (average peak strain was 8.3%) and in other studies may be possible due to the complex architecture of the Achilles tendon; however, prolonged hopping may well cause tendon damage. In conclusion, the properties of the elastic Achilles tendon can contribute significantly to the total mechanical work of the body during one-legged hopping; however, individual variation in the properties of the tendon vary the energy storing capacity of this structure.
Nutritional status influences socially regulated foraging ontogeny in honey bees
Authors: Toth Amy L. , Kantarovich Sara , Meisel Adam F. , Robinson Gene E.
Published: December 2005

In many social insects, including honey bees, worker energy reserve levels are correlated with task performance in the colony. Honey bee nest workers have abundant stored lipid and protein while foragers are depleted of these reserves; this depletion precedes the shift from nest work to foraging. The first objective of this study was to test the hypothesis that lipid depletion has a causal effect on the age at onset of foraging in honey bees (Apis mellifera L.). We found that bees treated with a fatty acid synthesis inhibitor (TOFA) were more likely to forage precociously. The second objective of this study was to determine whether there is a relationship between social interactions, nutritional state and behavioral maturation. Since older bees are known to inhibit the development of young bees into foragers, we asked whether this effect is mediated nutritionally via the passage of food from old to young bees. We found that bees reared in social isolation have low lipid stores, but social inhibition occurs in colonies in the field, whether young bees are starved or fed. These results indicate that although social interactions affect the nutritional status of young bees, social and nutritional factors act independently to influence age at onset of foraging. Our findings suggest that mechanisms linking internal nutritional physiology to foraging in solitary insects have been co-opted to regulate altruistic foraging in a social context.
Lactate – a signal coordinating cell and systemic function
Authors: Philp Andrew , Macdonald Adam L. , Watt Peter W.
Published: December 2005

Since its first documented observation in exhausted animal muscle in the early 19th century, the role of lactate (lactic acid) has fascinated muscle physiologists and biochemists. Initial interpretation was that lactate appeared as a waste product and was responsible in some way for exhaustion during exercise. Recent evidence, and new lines of investigation, now place lactate as an active metabolite, capable of moving between cells, tissues and organs, where it may be oxidised as a fuel or reconverted to form pyruvate or glucose. The questions now to be asked concern the effects of lactate at the systemic and cellular level on metabolic processes. Does lactate act as a metabolic signal to specific tissues, becoming a metabolite pseudo-hormone?Does lactate have a role in whole-body coordination of sympathetic/parasympathetic nerve system control? And, finally, does lactate play a role in maintaining muscle excitability during intense muscle contraction?

The concept of lactate acting as a signalling compound is a relatively new hypothesis stemming from a combination of comparative, cell and whole-organism investigations. It has been clearly demonstrated that lactate is capable of entering cells via the monocarboxylate transporter (MCT) protein shuttle system and that conversion of lactate to and from pyruvate is governed by specific lactate dehydrogenase isoforms, thereby forming a highly adaptable metabolic intermediate system. This review is structured in three sections,the first covering pertinent topics in lactate's history that led to the model of lactate as a waste product. The second section will discuss the potential of lactate as a signalling compound, and the third section will identify ways in which such a hypothesis might be investigated.

In examining the history of lactate research, it appears that periods have occurred when advances in scientific techniques allowed investigation of this metabolite to expand. Similar to developments made first in the 1920s and then in the 1980s, contemporary advances in stable isotope, gene microarray and RNA interference technologies may allow the next stage of understanding of the role of this compound, so that, finally, the fundamental questions of lactate's role in whole-body and localised muscle function may be answered.
Characterization of Methylated and Unmethylated CpG Oligodeoxynucleotides by Electrospray Ionization Tandem Mass Spectrometry
Authors: Ma Huimin , Zhang Wenbing , Song Renfang , Chen Huayong , Sheng Guoying , Zhou Zhen , Fu Jiamo
Published: December 2005

Methylated and unmethylated CpG oligodeoxynucleotides (ODNs) at A-rich, C-rich, G-rich and T-rich conditions were characterized by electrospray ionization tandem mass spectrometry (ESI-MS/MS). The methyalted site could be confirmed by comparison of the MS/MS spectra of methylated and unmethylated CpG-ODNs. The fragmentation patterns of the CpG-ODNs were not influenced by the presence of the methyl group but significant effects were observed for nucleobase identities and parent ion charges. The cleavage at guanine was the most facile while that at thymine was the least facile. With the increase of the parent ions charge states, the major dissociation behaviors changed from the middle to the 3′ and 5′ termini of the sequence.
An Analysis of Protein Abundance Suppression in Data Dependent Liquid Chromatography and Tandem Mass Spectrometry with Tryptic Peptide Mixtures of Five Known Proteins
Authors: Sun Wei , Wu Shuzhen , Wang Xiaorong , Zheng Dexian , Gao Youhe
Published: December 2005

Reverse-phase liquid chromatography (RPLC) has been widely used in proteomics research for peptide separation. When protein samples are separated by RPLC and identified with electrospray ion trap mass spectrometry (ES-IT-MS), the signals of high-abundance proteins may suppress those of low-abundance proteins, a phenomenon known as abundance suppression. To what degree the abundance suppression correlates to the number of tryptic peptides in the high-abundance proteins has not been carefully investigated. We tried to answer this question by studying the mixtures digested from five known proteins. The number of identified tryptic peptides (longer than five amino acids) of the five proteins ranged from 12 to 47. Four different peptide mixtures with 10- to 100-fold abundance differences of five known proteins were separated by RPLC and identified by ES-IT-MS. Our results showed that abundance suppression was related to the tryptic peptide numbers in the high-abundance protein. Within a 100-fold protein abundance difference range, the tryptic peptide numbers in the low-abundance proteins could be suppressed up to seven times by high-abundance proteins. The procedure we suggest here can help to identify low-abundance proteins co-purified with their high-abundance binding protein. The results can also help to identify specific high-abundance proteins for removal by immunoaffinity.
Characterisation of Derivatised Monomeric and Prepolymeric Isocyanates by Matrix-Assisted Laser Desorption/Ionisation Time-of-Flight Mass Spectrometry and Structural Elucidation by Tandem Mass Spectrometry
Authors: Warburton Karen E. , Clench Malcolm R. , Ford Michael J. , White John , Rimmer Duncan A. , Carolan Vikki A.
Published: December 2005

Isocyanates are an important class of compounds in occupational hygiene monitoring due mainly to their behaviour as respiratory sensitisers. Here, we demonstrate the application of matrix-assisted laser desorption/ionisation mass spectrometry (MALDI-MS) and MALDI tandem mass spectrometry (MS-MS) to the analysis of derivatised isocyanate monomers and prepolymers. The aim of the work has been to gauge the selectivity obtainable from the direct analysis of isocyanate mixtures without prior separation. Monomeric and prepolymeric isocyanate mixtures were analysed as their 1-(2-methoxyphenyl) piperazine derivatives and the potential of MALDI time-of-flight (ToF)-MS for an NCO monitoring program was assessed. The results obtained demonstrated the possibility of direct mixture analysis by this method. MALDI-MS-MS was used for the elucidation of fragment structures in the prepolymer samples. The developed methodology was then applied to the analysis of swabs from an occupational hygiene monitoring scheme and enabled the identification of the isocyanate species detected.
Mass Spectrometry of Step-Growth Polymers
Authors: Klee Joachim E.
Published: December 2005

For at least two decades, different mass spectrometric techniques have been applied for polymer analysis, including the qualitative determination of chemical compositions, end group identification, functionality type distribution and the determination of the extent of cyclisation at each degree of polymerisation. Molecular weights exceeding 100 KDa are provable by matrix-assisted laser desorption/ionisation mass spectrometry (MALDI-ToF-MS). Further, molecular weight distributions are determined by MADLI-ToF. However, there are some hints that there is a discrimination against higher molecular weight species in samples with polydispersity of more than 1.2. Furthermore, pathways for dendritic and hyper-branched polymers, supramolecular polymers and nano condensates are analysed with the help of mass spectrometry.
Comparison of various types of stiffness as predictors of the load-bearing capacity of callus tissue
Authors: Floerkemeier T. , Hurschler C. , Witte F. , Wellmann M. , Thorey F. , Vogt U. , Windhagen H.
Published: December 2005

The ability to predict load-bearing capacity during the consolidation phase in distraction osteogenesis by non-invasive means would represent a significant advance in the management of patients undergoing such treatment. Measurements of stiffness have been suggested as a promising tool for this purpose. Although the multidimensional characteristics of bone loading in compression, bending and torsion are apparent, most previous experiments have analysed only the relationship between maximum load-bearing capacity and a single type of stiffness. We have studied how compressive, bending and torsional stiffness are related to the torsional load-bearing capacity of healing callus using a common set of samples of bone regenerate from 26 sheep treated by tibial distraction osteogenesis.

Our findings showed that measurements of torsional, bending and compressive stiffness were all suitable as predictors of the load-bearing capacity of healing callus. Measurements of torsional stiffness performed slightly better than those of compressive and bending stiffness.
Revision of an acetabular liner has a high risk of dislocation
Authors: Blom A. W. , Astle L. , Loveridge J. , Learmonth I. D.
Published: December 2005

Polyethylene liners of modular acetabular components wear sometimes need to be replaced, despite the metal shell being well fixed. Replacing the liner is a relatively simple procedure, but very little is known of the outcome of revision. We prospectively followed up 1126 Harris-Galante I metal-backed, uncemented components for between nine and 19 years. We found 38 (3.4%) liners of 1126 acetabular components wore and required revision. These revisions were then followed up for a mean of 4.8 years. The rate of dislocation was 28.9%. Nine of the dislocations occurred once and two were recurrent.

The overall secondary revision rate was three of 38 total hip replacements (7.9%) at a mean follow-up of 4.8 years. This gives a 92.1% survivorship (35 of 38) at under five years. In isolated revision of a liner, we had a complication rate of 23% (three of 13). In revision of a liner combined with revision of the femoral stem, there was a complication rate of 48% (12 of 25). We discuss possible reasons for the high dislocation rates.

Leaving the well-fixed acetabular shell in situ leads to an increased risk of instability. However, this needs to be balanced against the otherwise low complication rate for revision of the liner. Patients should be consented accordingly.
Acetabular development after bipolar hemiarthroplasty for osteosarcoma in children
Authors: Manoso M. W. , Boland P. J. , Healey J. H. , Tyler W. , Morris C. D.
Published: December 2005

A retrospective analysis was performed of eight patients with an open triradiate cartilage, who underwent resection for osteosarcoma and reconstruction of the proximal femur with a hemiarthroplasty, in order to identify changes of acetabular development. An analysis of the centre-edge angle, teardrop-to-medial prosthesis distance, superior joint space, teardrop-to-superior prosthesis distance, degree of lateral translation, and arthritic changes, was performed on serial radiographs. The median age at the time of the initial surgery was 11 years (5 to 14).

All patients developed progressive superior and lateral migration of the prosthetic femoral head. Following hemiarthroplasty in the immature acetabulum, the normal deepening and enlargement of the acetabulum is arrested. The degree of superior and lateral migration of the prosthetic head depends on the age at diagnosis and the length of follow-up.
Continuous passive motion versus immobilisation in a cast after surgical treatment of idiopathic club foot in infants
Authors: Zeifang F. , Carstens C. , Schneider S. , Thomsen M.
Published: December 2005

Continuous passive motion has been shown to be effective in the conservative treatment of idiopathic club foot. We wished to determine whether its use after operation could improve the results in resistant club feet which required an extensive soft-tissue release. There were 50 feet in the study. Posteromedial lateral release was performed in 39 feet but two were excluded due to early relapse. The mean age at surgery was eight months (5 to 12). Each foot was assigned a Dimeglio club foot score, which was used as a primary outcome measure, before operation and at 6, 12, 18 and 44 months after. Nineteen feet were randomly selected to receive continuous passive motion and 18 had standard immobilisation in a cast.

After surgery and subsequent immobilisation in a cast the Dimeglio club foot score improved from 10.3 before to 4.17 by 12 months and to 3.89 at 48 months. After operation followed by continuous passive motion the score improved from 9.68 before to 3.11 after 12 months, but deteriorated to 4.47 at 48 months. Analysis of variance adjusted for baseline values indicated a significantly better score in those having continuous passive motion up to one year after surgery, but after 18 and 48 months the outcomes were the same in both groups.
Surgical treatment of skeletal metastatic lesions of the proximal femur
Authors: Wedin R. , Bauer H. C. F.
Published: December 2005

We report positive and negative factors associated with the most commonly-used methods of reconstruction after pathological fracture of the proximal femur. The study was based on 142 patients treated surgically for 146 metastatic lesions between 1996 and 2003. The local rate of failure was 10.3% (15 of 146). Of 37 operations involving osteosynthetic devices, six failed (16.2%) compared with nine (8.3%) in 109 operations involving endoprostheses. Of nine cases of prosthetic failure, four were due to periprosthetic fractures and three to recurrent dislocation. In the osteosynthesis group, three (13.6%) of 22 reconstruction nails failed. The two-year risk of re-operation after any type of osteosynthesis was 0.35 compared with 0.18 after any type of endoprosthetic reconstruction (p = 0.07). Endoprosthetic reconstructions are preferable to the use of reconstruction nails and other osteosynthetic devices for the treatment of metastatic lesions in the proximal third of the femur.
The management of avascular necrosis after slipped capital femoral epiphysis
Authors: Mullins M. M. , Sood M. , Hashemi-Nejad A. , Catterall A.
Published: December 2005

Avascular necrosis is a serious complication of slipped capital femoral epiphysis and is difficult to treat. The reported incidence varies from 3% to 47% of patients. The aims of treatment are to maintain the range of movement of the hip and to prevent collapse of the femoral head. At present there are no clear guidelines for the management of this condition and treatment can be difficult and unrewarding.

We have used examination under anaesthesia and dynamic arthrography to investigate avascular necrosis and to determine the appropriate method of treatment. We present 20 consecutive cases of avascular necrosis in patients presenting with slipped capital femoral epiphysis and describe the results of treatment with a mean follow-up of over eight years (71 to 121 months). In patients who were suitable for joint preservation (14), we report a ten-year survivorship of the hip joint of 75% and a mean Harris hip score of 82 (44 to 98).
Histology of vancomycin-supplemented impacted bone allografts in revision total hip arthroplasty
Authors: Buttaro M. A. , Morandi A. , Rivello H. Garcia , Piccaluga F.
Published: December 2005

Vancomycin-supplemented allografts provide biological restoration of bone stock and sound fixation with a low incidence of re-infection. Experimental incorporation of these grafts is similar to allografts without vancomycin. However, the underlying biology remains unknown.

We report the first histological observations of vancomycin-supplemented impacted bone allografts in two reconstructions performed 14 and 20 months after revision surgery because of a periprosthetic fracture.

Areas of active bone remodelling (creeping substitution), as well as calcified bone trabeculae and graft particles embedded in dense fibrous tissue, were observed with osteoid and fibroconnective tissue surrounding polymethylmethacrylate particles.

These pathological findings are similar to those reported in allografts without vancomycin and support the hypothesis that high levels of vancomycin do not affect the incorporation of bone graft.
The incidence of Perthes’ disease in Korea
Authors: Rowe S.-M. , Jung S.-T. , Lee K.-B. , Bae B.-H. , Cheon S.-Y. , Kang K.-D.
Published: December 2005

The purpose of this study was to determine the annual incidence of Perthes’ disease in Korea and compare this with other populations. A survey identified all newly diagnosed children with Perthes’ disease aged 14 years or younger in South Honam, Korea, between January 1999 and December 2001. A total of 84 children were included: 29 in 1999, 28 in 2000 and 27 in 2001. The mean annual incidence was 3.8 per 100 000. This is similar to that reported in other Asian countries, but higher than in black populations and lower than in Caucasians.
Total hip replacement with a zirconium oxide ceramic femoral head
Authors: von Schewelov T. , Sanzén L. , Önsten I. , Carlsson å. , Besjakov J.
Published: December 2005

We investigated the wear characteristics and clinical performance of four different total hip joint articulations in 114 patients. Wear and migration was measured by roentgenstereophotogrammetric analysis at five years or at the last follow-up. The mean annual wear was 0.11 mm for a stainless steel/Enduron articulation, 0.34 mm for stainless steel/Hylamer cup, 0.17 mm for zirconium oxide ceramic/Enduron and 0.40 mm for zirconium oxide ceramic/Hylamer. The difference between the groups was significant (p < 0.008) except for stainless steel/Hylamer vs zirconium oxide ceramic/Hylamer (p = 0.26).

At present, 12 patients have undergone a revision procedure, four at five years and eight thereafter. No patient who received a stainless steel/Enduron articulation at their primary replacement required revision.

Conflicting results have been reported about the performance of the zirconium oxide ceramic femoral head, but our findings suggest that it should not be used with a polymethylmethacrylate acetabular component. Hylamer has already been withdrawn from the market.
Reconstruction of the anterior cruciate ligament
Authors: Church S. , Keating J. F.
Published: December 2005

We reviewed 183 patients who had undergone reconstruction of the anterior cruciate ligament. The incidence of meniscal tears and degenerative change was assessed and related to the timing from injury to surgery. Degenerative change was scored using the French Society of Arthroscopy system. The patients were divided into an early (surgery within 12 months of injury) and a late group (surgery more than 12 months from injury). The late group was also subdivided into four groups of 12-month periods ranging from one year to more than four years after injury.

There was a significantly higher incidence of meniscal tears in patients undergoing reconstruction after 12 months compared with those in the early group (71.2% vs 41.7%; p < 0.001). This was due to a large increase in medial meniscal tears in the late group. An increased incidence of degenerative change was also found in the late group (31.3% vs 10.7%; p < 0.001). Analysis of the subgroups showed that the incidence of meniscal tears and degenerative change did not differ significantly when surgery was performed after 12 months from injury. We conclude that reconstruction of the anterior cruciate ligament should be carried out within 12 months of injury to minimise the risk of meniscal tears and degenerative change.
A Bayesian Approach for Discriminating Among Alternative Inheritance Hypotheses in Plant Polyploids: The Allotetraploid Origin of Genus Borderea (Dioscoreaceae)
Authors: Catalán Pilar , Segarra-Moragues José Gabriel , Palop-Esteban Marisa , Moreno Carlos , González-Candelas Fernando
Published: December 2005

Polyploidy is a common phenomenon occurring in a vast number of land plants. Investigations of patterns of inheritance and the origins of plants (i.e., autopolyploidy vs. allopolyploidy) usually involve cytogenetic and molecular studies of chromosome pairing, chromosome mapping, and marker segregation analysis through experimental crosses and progeny tests. Such studies are missing for most wild species, for which artificial crosses are difficult, not feasible, or unaffordable. We report here a Bayesian method to discriminate between alternative inheritance patterns in the two extant, tetraploid species of the monocot genus Borderea (Dioscoreaceae), which does not involve progeny array tests. Our approach is based on the screening of a large number of SSR genotypes, which were obtained from successful amplifications of 17 microsatellite regions in individuals of both B. chouardii and B. pyrenaica. We tested for tetrasomic vs. disomic modes of inheritance, using the Bayes factor test. Assignment of genotypes under both alternatives could be unequivocally done for 14 and 11 of the 17 studied microsatellite regions in B. chouardii and B. pyrenaica, respectively, totaling 9502 analyzed genotypes. The comparison of posterior probabilities for the two competing hypotheses across the surveyed loci clearly favored a disomic inheritance pattern. Linkage tests indicated that none of the studied SSR loci were in linkage disequilibrium, thus representing independent samples of the Borderea genome. These results, along with previous allozyme data, support the allotetraploid origin of this paleoendemic genus and reveal the lowest reported chromosome base number for the family of the yams.
Spontaneous Mutations in Recombinant Inbred Mice: Mutant Toll-like Receptor 4 (Tlr4) in BXD29 Mice
Authors: Cook Donald N , Whitehead Gregory S , Burch Lauranell H , Berman Katherine G , Kapadia Zareen , Wohlford-Lenane Christine , Schwartz David A
Published: December 2005

Recombinant inbred (RI) mice are frequently used to identify QTL that underlie differences in measurable phenotypes between two inbred strains of mice. Here we show that one RI strain, C57BL/6J × DBA/2J (BXD29), does not develop an inflammatory response following inhalation of LPS. Approximately 25% of F2 mice [F1(BXD29 × DBA/2J) × F1] are also unresponsive to inhaled LPS, suggesting the presence of a recessive mutation in the BXD29 strain. A genomic scan of these F2 mice revealed that unresponsive animals, but not responsive animals, are homozygous for C57BL/6J DNA at a single locus on chromosome 4 close to the genomic location of Tlr4. All progeny between BXD29 and gene-targeted Tlr4-deficient mice are unresponsive to inhaled LPS, suggesting that the mutation in the BXD29 strain is allelic with Tlr4. Moreover, the intact Tlr4 receptor is not displayed on the cell surface of BXD29 macrophages. Finally, a molecular analysis of the Tlr4 gene in BXD29 mice revealed that it is interrupted by a large insertion of repetitive DNA. These findings explain the unresponsiveness of BXD29 mice to LPS and suggest that data from BXD29 mice should not be included when using BXD mice to study phenotypes affected by Tlr4 function. Our results also suggest that the frequency of such unidentified, spontaneously occurring mutations is an issue that should be considered when RI strains are used to identify QTL.
An Essential Gene for Fruiting Body Initiation in the Basidiomycete Coprinopsis cinerea Is Homologous to Bacterial Cyclopropane Fatty Acid Synthase Genes
Authors: Liu Yi , Srivilai Prayook , Loos Sabine , Aebi Markus , Kües Ursula
Published: December 2005

The self-compatible Coprinopsis cinerea homokaryon AmutBmut produces fruiting bodies without prior mating to another strain. Early stages of fruiting body development include the dark-dependent formation of primary hyphal knots and their light-induced transition to the more compact secondary hyphal knots. The AmutBmut UV mutant 6-031 forms primary hyphal knots, but development arrests at the transition state by a recessive defect in the cfs1 gene, isolated from a cosmid library by mutant complementation. A normal primordia phenotype was achieved when cfs1+ was embedded at both sides in at least 4.0 kb of native flanking DNA. Truncations of the flanking DNA lead to reduction in transformation frequencies and faults in primordia tissue formation, suggesting that the gene is also acting at later stages of development. The cfs1 gene encodes a protein highly similar to cyclopropane fatty acid synthases, a class of enzymes shown in prokaryotes and recently in a plant to convert membrane-bound unsaturated fatty acids into cyclopropane fatty acids. In C. cinerea 6-031, the mutant cfs1 allele carries a T-to-G transversion, leading to an amino acid substitution (Y441D) in a domain suggested to be involved in the catalytic function of the protein and/or membrane interaction.
The Saccharomyces cerevisiae Phosphatase Activator RRD1 Is Required to Modulate Gene Expression in Response to Rapamycin Exposure
Authors: Douville Julie , David Jocelyn , Lemieux Karine M , Gaudreau Luc , Ramotar Dindial
Published: December 2005

We show that mutants lacking either the phosphatase activator Rrd1 or the phosphatase Pph3 are resistant to rapamycin and that double mutants exhibit a synergistic response. This phenotype could be related to an inability of the mutants to degrade RNA polymerase II, leading to transcription of critical genes that sustain growth.
Comparative Analysis of Gender-Associated Complete Mitochondrial Genomes in Marine Mussels (Mytilus spp.)
Authors: Breton Sophie , Burger Gertraud , Stewart Donald T , Blier Pierre U
Published: December 2005

Marine mussels of the genus Mytilus have an unusual mode of mitochondrial DNA (mtDNA) transmission termed doubly uniparental inheritance (DUI). Female mussels are homoplasmic for the F mitotype, which is inherited maternally, while males are usually heteroplasmic, carrying a mixture of the maternal F mitotype and the paternally inherited M genome. Two classes of M genomes have been observed: “standard” M genomes and “recently masculinized” M genomes. The latter are more similar to F genomes at the sequence level but are transmitted paternally like standard M genomes. In this study we report the complete sequences of two standard male M. edulis and one recently masculinized male M. trossulus mitochondrial genome. A comparative analysis, including the previously sequenced M. edulis F and M. galloprovincialis F and M mtDNAs, reveals that these genomes are identical in gene order, but highly divergent in nucleotide and amino acid sequence. The large amount (>20%) of nucleotide substitutions that fall in coding regions implies that there are several amino acid replacements between the F and M genomes, which likely have an impact on the structural and functional properties of the mitochondrial proteome. Correlation of the divergence rate of different protein-coding genes indicates that mtDNA-encoded proteins of the M genome are still under selective constraints, although less highly than genes of the F genome. The mosaic F/M control region of the masculinized F genome provides evidence for lineage-specific sequences that may be responsible for the different mode of transmission genetics. This analysis shows the value of comparative genomics to better understand the mechanisms of maintenance and segregation of mtDNA sequence variants in mytilid mussels.
Identification of Quantitative Trait Loci Across Recombinant Inbred Lines and Testcross Populations for Traits of Agronomic Importance in Rice
Authors: You Aiqing , Lu Xinggui , Jin Huajun , Ren Xiang , Liu Kai , Yang Guocai , Yang Haiyuan , Zhu Lili , He Guangcun
Published: December 2005

This study was conducted to determine whether quantitative trait loci (QTL) controlling traits of agronomic importance detected in recombinant inbred lines (RILs) are also expressed in testcross (TC) hybrids of rice. A genetic map was constructed using an RIL population derived from a cross between B5 and Minghui 63, a parent of the most widely grown hybrid rice cultivar in China. Four TC hybrid populations were produced by crossing the RILs with three maintaining lines for the widely used cytoplasmic male-sterile (CMS) lines and the genic male-sterile line Peiai64s. The mean values of the RILs for the seven traits investigated were significantly correlated to those of the F1 hybrids in the four TC populations. Twenty-seven main-effect QTL were identified in the RILs. Of these, the QTL that had the strongest effect on each of the seven traits in the RILs was detected in two or more of the TC populations, and six other QTL were detected in one TC population. Epistatic analysis revealed that the effect of epistatic QTL was relatively weak and cross combination specific. Searching publicly available QTL data in rice revealed the positional convergence of the QTL with the strongest effect in a wide range of populations and under different environments. Since the main-effect QTL is expressed across different testers, and in different genetic backgrounds and environments, it is a valuable target for gene manipulation and for further application in rice breeding. When a restorer line that expresses main-effect QTL is bred, it could be used in a number of cross combinations.
Optimal Haplotype Structure for Linkage Disequilibrium-Based Fine Mapping of Quantitative Trait Loci Using Identity by Descent
Authors: Grapes L , Firat M Z , Dekkers J C M , Rothschild M F , Fernando R L
Published: December 2005

A linkage disequilibrium-based method for fine mapping quantitative trait loci (QTL) has been described that uses similarity between individuals' marker haplotypes to determine if QTL alleles are identical by descent (IBD) to model covariances among individuals' QTL alleles for a mixed linear model. Mapping accuracy with this method was found to be sensitive to the number of linked markers that was included in the haplotype when fitting the model at a putative position of the QTL. The objective of this study was to determine the optimal haplotype structure for this IBD-based method for fine mapping a QTL in a previously identified QTL region. Haplotypes consisting of 1, 2, 4, 6, or all 10 available markers were fit as a “sliding window” across the QTL region under ideal and nonideal simulated population conditions. It was found that using haplotypes of 4 or 6 markers as a sliding “window” resulted in the greatest mapping accuracy under nearly all conditions, although the true IBD state at a putative QTL position was most accurately predicted by IBD probabilities obtained using all markers. Using 4 or 6 markers resulted in greater discrimination of IBD probabilities between positions while maintaining sufficient accuracy of IBD probabilities to detect the QTL. Fitting IBD probabilities on the basis of a single marker resulted in the worst mapping accuracy under all conditions because it resulted in poor accuracy of IBD probabilities. In conclusion, for fine mapping using IBD methods, marker information must be used in a manner that results in sensitivity of IBD probabilities to the putative position of the QTL while maintaining sufficient accuracy of IBD probabilities to detect the QTL. Contrary to expectation, use of haplotypes of 4–6 markers to derive IBD probabilities, rather than all available markers, best fits these criteria. Thus for populations similar to those simulated here, optimal mapping accuracy for this IBD-based fine-mapping method is obtained with a haplotype structure including a subset of all available markers.
After the Duplication: Gene Loss and Adaptation in Saccharomyces Genomes
Authors: Cliften Paul F , Fulton Robert S , Wilson Richard K , Johnston Mark
Published: December 2005

The ancient duplication of the Saccharomyces cerevisiae genome and subsequent massive loss of duplicated genes is apparent when it is compared to the genomes of related species that diverged before the duplication event. To learn more about the evolutionary effects of the duplication event, we compared the S. cerevisiae genome to other Saccharomyces genomes. We demonstrate that the whole genome duplication occurred before S. castellii diverged from S. cerevisiae. In addition to more accurately dating the duplication event, this finding allowed us to study the effects of the duplication on two separate lineages. Analyses of the duplication regions of the genomes indicate that most of the duplicated genes (∼85%) were lost before the speciation. Only a small amount of paralogous gene loss (4–6%) occurred after speciation. On the other hand, S. castellii appears to have lost several hundred genes that were not retained as duplicated paralogs. These losses could be related to genomic rearrangements that reduced the number of chromosomes from 16 to 9. In addition to S. castellii, other Saccharomyces sensu lato species likely diverged from S. cerevisiae after the duplication. A thorough analysis of these species will likely reveal other important outcomes of the whole genome duplication.
Evidence for Recombination of Mitochondrial DNA in Triploid Crucian Carp
Authors: Guo Xinhong , Liu Shaojun , Liu Yun
Published: December 2005

In this study, we report the complete mitochondrial DNA (mtDNA) sequences of the allotetraploid and triploid crucian carp and compare the complete mtDNA sequences between the triploid crucian carp and its female parent Japanese crucian carp and between the triploid crucian carp and its male parent allotetraploid. Our results indicate that the complete mtDNA nucleotide identity (98%) between the triploid crucian carp and its male parent allotetraploid was higher than that (93%) between the triploid crucian carp and its female parent Japanese crucian carp. Moreover, the presence of a pattern of identity and difference at synonymous sites of mitochondrial genomes between the triploid crucian carp and its parents provides direct evidence that triploid crucian carp possessed the recombination mtDNA fragment (12,759 bp) derived from the paternal fish. These results suggest that mtDNA recombination was derived from the fusion of the maternal and paternal mtDNAs. Compared with the haploid egg with one set of genome from the Japanese crucian carp, the diploid sperm with two sets of genomes from the allotetraploid could more easily make its mtDNA fuse with the mtDNA of the haploid egg. In addition, the triple hybrid nature of the triploid crucian carp probably allowed its better mtDNA recombination. In summary, our results provide the first evidence of mtDNA combination in polyploid fish.
Transcriptional Reprogramming and Backup Between Duplicate Genes: Is It a Genomewide Phenomenon?
Authors: He Xionglei , Zhang Jianzhi
Published: December 2005

Deleting a duplicate gene often results in a less severe phenotype than deleting a singleton gene, a phenomenon commonly attributed to functional compensation among duplicates. However, duplicate genes rapidly diverge in expression patterns after duplication, making functional compensation less probable for ancient duplicates. Case studies suggested that a gene may provide compensation by altering its expression upon removal of its duplicate copy. On the basis of this observation and a genomic analysis, it was recently proposed that transcriptional reprogramming and backup among duplicates is a genomewide phenomenon in the yeast Saccharomyces cerevisiae. Here we reanalyze the yeast data and show that the high dispensability of duplicate genes with low expression similarity is a consequence of expression similarity and gene dispensability, each being correlated with a third factor, the number of protein interactions per gene. There is little evidence supporting widespread functional compensation of divergently expressed duplicate genes by transcriptional reprogramming.
Transcriptome Analysis and Physical Mapping of Barley Genes in Wheat–Barley Chromosome Addition Lines
Authors: Cho Seungho , Garvin David F , Muehlbauer Gary J
Published: December 2005

Wheat–barley chromosome addition lines are useful genetic resources for a variety of studies. In this study, transcript accumulation patterns in Betzes barley, Chinese Spring wheat, and Chinese Spring–Betzes chromosome addition lines were examined with the Barley1 Affymetrix GeneChip probe array. Of the 4014 transcripts detected in Betzes but not in Chinese Spring, 365, 271, 265, 323, 194, and 369 were detected in wheat–barley disomic chromosome addition lines 2(2H), 3(3H), 4(4H), 7(5H), 6(6H), and 1(7H), respectively. Thus, 1787 barley transcripts were detected in a wheat genetic background and, by virtue of the addition line in which they were detected, were physically mapped to barley chromosomes. We validated and extended our approach to physically map barley genes to the long and short arms of chromosome 6(6H). Our physical map data exhibited a high level of synteny with homologous sequences on the wheat and/or rice syntenous chromosomes, indicating that our barley physical maps are robust. Our results show that barley transcript detection in wheat–barley chromosome addition lines is an efficient approach for large-scale physical mapping of genes.