Effect of mature body weight and stocking rate on cow and calf performance, cow herd efficiency, and economics in the southeastern United States

Eight 4-ha mixed warm-season grass pastures in southwestern Arkansas (33°40'4″ N, 93°35'24″ W, and elevation 107 m) were stocked with either large mature size (571 kg [SD 55.2] BW) or small mature size (463 kg [SD 58.2] BW) spring-calving cows at 4 stocking rates (SR; 1, 1.5, 2, or 2.5 cow-calf pairs/ha) over 4 yr to test the effects of SR and mature body size on cow and calf performance and system economics. Each pasture received 112 kg/ha N as ammonium nitrate in May and was broadcast seeded to annual ryegrass ( Lam.) in mid October each fall along with 112 kg/ha N as ammonium nitrate. Data were analyzed by regression to determine the effects of cow size and SR on calf performance, cow BW change, calf gain, weaning weight per hectare, hay feeding requirements, and net returns. As SR increased, cow BW and BCS at weaning decreased ( < 0.01) by 26 kg and 0.36 condition scores, respectively, for each additional cow stocked per hectare ( = 0.44). Calf BW at weaning in October increased ( < 0.01) 19 kg for each 100-kg increase in cow BW but was not affected ( = 0.66) by SR. As cow BW increased, calf BW at weaning per 100 kg cow BW decreased ( < 0.01) 6.7 kg for each 100-kg increase in cow BW but was not affected ( = 0.44) by SR. Neither cow BW nor SR affected ( ≥ 0.53) pregnancy percentage, which averaged 88% over the 4-yr experiment. Calf BW weaned per hectare was not affected ( = 0.75) by cow BW but linearly increased ( < 0.01) by 217 kg for each additional cow per hectare SR. Hay feeding days and cost of hay per cow increased ( ≤ 0.05) and kilograms of hay offered per cow tended ( = 0.09) to linearly increase with increasing SR, yet cow BW had no effects ( > 0.22). Although there were no effects ( ≥ 0.38) of cow BW on carrying cost or net returns, increasing SR decreased ( < 0.01) total expenses by US$102/cow and increased net returns by $70/cow and $438/ha for each cow per hectare increase in SR. These data indicate that increasing cow size can increase weaning BW of calves but does not affect total production per hectare or profitability, even though weaning weight efficiency ratios were reduced. Increasing SR reduced cow BW and BCS at weaning and increased feeding of conserved forages but did not affect pregnancy rates and led to increases in total calf BW weaned per hectare and net returns.

Effects of stocking rate, forage management, and grazing management on performance and economics of cow-calf production in Southwest Arkansas

The objective this research was to determine the effect of application of multiple grazing management practices at 2 stocking rates (SR) on the productivity and economics of the cow-calf enterprise in the Southeastern United States over a 4-yr period. Pasture management systems included: continuous grazing management at a moderate SR (0.8 ha/cow; CG) without additional forage management, rotational grazing management at a moderate SR (0.8 ha/cow (MR) with addition of stockpiled bermudagrass [ (L.) Pers.] and complementary cool season annuals, and rotational grazing management similar to MR but with a high SR (0.4 ha/cow; HR). Stockpiling in MR and HR was managed by fertilization of 0.2 ha/cow of bermudagrass in early August with 168 kg ammonium nitrate and deferring grazing until November. Wheat (; 112 kg/ha) and annual ryegrass ( Lam.; 28 kg/ha) were interseeded (0.2 ha/cow) in HR and MR with a no-till drill in the fall. Cow and calf performance and economics data were analyzed by ANOVA using the MIXED procedure of SAS (SAS Inst. Inc., Cary, NC) and pregnancy percentage was analyzed using the GLIMMIX procedure of SAS; pasture was the experimental unit and year was the random block. Hay feeding days decreased ( < 0.01) from 107 ± 10.9 d for CG to 37 ± 10.9 d for HR, which was further reduced ( = 0.01) to 15 ± 10.9 d for MR. Pregnancy percentage did not differ ( = 0.20) among treatments. Weaning BW in CG (237 ± 7.3 kg) tended ( = 0.09) to be greater than in MR (227 ± 7.3 kg) and were greater ( < 0.01) than in HR (219 ± 7.3 kg). However, total weaning BW per hectare was 89% greater ( < 0.01) for HR compared with CG and MR, which did not differ ( = 0.31). With rotational stocking, there was the opportunity to harvest excess forage as hay in both MR and HR with a net value of US$52.90/ha ± 25.73 and $15.50/ha ± 25.73, respectively. Net returns per hectare did not differ ( = 0.30) between CG ($429 ± 63.0/ha) and MR ($479 ± 63.0/ha) but were increased ( < 0.01) by 107% by HR ($1,024 ± 63.0/ha). Using rotational grazing, stockpiled bermudagrass, and complementary cool-season annual grasses can drastically reduce winter feed requirements and simultaneously increase carrying capacity and net return.

Predictors of deep vein thrombosis (DVT) in newly diagnosed multiple myeloma (MM) patients with and without prophylactic recombinant erythropoietin (EPO) therapy

9554

Background: DVT, a complication among newly diagnosed MM patients, is most common during the first 3–4 months of therapy. EPO, given to treat anemia in patients receiving chemotherapy, has been associated with increased DVT risk and the mechanism, thought to be related to rise in hemoglobin, remains unknown. Methods: All 604 patients with newly diagnosed MM who completed the induction phase (∼ 3–4 months) of treatment were included. Induction consisted of multiagent chemotherapy with upfront randomization to thalidomide (THAL) or no THAL. 122 patients were also enrolled in an exercise study that included prophylactic EPO. Venous thromboembolism, defined as Doppler confirmed DVT and/or pulmonary embolus during induction, was the primary endpoint. Univariate analyses provided group comparisons. Logistic regression analysis determined predictors of DVT. Results: EPO and No EPO groups were similar for THAL use, age, race, gender, BMI, DVT history, and key baseline laboratory values except for lower cytogenetics risk score (p = 0.010) and higher albumin (p = 0.005), hemoglobin (p = 0.025) and fibrinogen (p = 0.0005) in the EPO group. EPO patients had a higher incidence of DVT 25 (20.5%) vs. 47 (9.8%) (p = 0.001). Risk factors for DVT by univariate analysis were THAL (p =0.001) and baseline platelets > 350,000/μL (p = 0.018) but not hemoglobin (at baseline or throughout study). There were no significant differences in MM response or survival between the groups with and without DVT. Compared to the No EPO group, EPO-treated patients had a better MM response (p = 0.023) and a higher survival (p = 0.0005). The main predictors of DVT by logistic regression were THAL and prophylactic EPO. Conclusions: THAL and prophylactic EPO predict for higher risk of DVT among newly diagnosed MM patients. Hemoglobin levels were not related to higher risk of DVT. DVT and EPO did not decrease treatment response or survival.

No significant financial relationships to disclose.

Determining familial risk of multiple myeloma

8111

Background: The etiology of multiple myeloma (MM) remains unknown although genetic and environmental factors have been implicated. Familial MM has been reported; however, whether this familial tendency is due to genetic factors or environmental exposures or both is not known. Analysis of SEER data showed that Iowa, an agricultural state, had the highest incidence of MM; however, once we adjusted for race, sex, age, and year of diagnosis, the effect of geographic area was small and the main effect was race. This project aims to build a Familial MM Registry of families and investigate the families’ pedigrees and environmental factors to determine the familial risk of MM. The long term goal is to identify myeloma susceptibility loci which ultimately could lead to finding myeloma prone germline mutations. Methods: Patients (n = 67) from the Myeloma Institute for Research and Therapy at the University of Arkansas for Medical Sciences and their family members with MM or a related malignancy (amyloidoses, lymphoma, chronic lymphocytic leukemia, chronic myelogenous leukemia, Waldenstrom's macroglobulinemia, Hairy cell leukemia, acute myelogenous leukemia, acute lymphocytic leukemia, Hodgkin's disease) were interviewed for environmental factors associated with MM and for family history data to complete pedigrees. Pedigrees were analyzed to determine the patterns of inheritance. Results: Data show that 26 patients (39%) have family members with MM (one having five family members with MM) and 34 patients (51%) have family members with related malignancies. Eighteen families (27%) have a putative autosomal dominant mode of genetic transmission of MM. Pancreatic cancer, malignant melanoma, breast cancer and lymphoma may be part of a myeloma syndrome. Pesticide/insecticide exposure, raising cattle or growing cotton were the most prevalent environmental risk factors. Conclusions: The pedigrees suggest the existence of genetic traits affecting MM susceptibility. This work will be part of the efforts to create an international consortium to study familial MM. Research in the area of molecular epidemiology is needed to discover the genetic and environmental determinants of this disease and the reasons for the racial and gender differences.

No significant financial relationships to disclose.

Effect of species of cool-season annual grass interseeded into Bermudagrass sod on the performance of growing calves

Two experiments were conducted to evaluate the effect of species of cool-season annual grass on the growth of stocker cattle over 3 yr. In Exp. 1, the small grains (SG) oat (O), rye (R), and wheat (W), or combinations of SG and annual ryegrass (RG), were interseeded into Bermudagrass sod in a completely randomized design with a 3 x 2 factorial arrangement of treatments. In Exp. 2, RG was planted alone or with O, R, triticale (T), or W in a completely randomized design. Pastures were planted in late October of each year, and seeding rates were 134.4 and 22.4 kg/ha for SG and RG, respectively. In Exp. 1, grazing was initiated on December 18. In Exp. 2, grazing was initiated on December 23 for SG pastures and January 21 or February 16 for RG pastures in yr 1 and on December 8 for all pastures in yr 2. Grazing was managed using the put-and-take method, in which additional calves were added as needed to maintain equal grazing pressure among pastures. In Exp. 1, no interactions (P > or = 0.28) were detected, so the main effects of SG species and RG addition are discussed. From December 18 to March 12, there were no differences in ADG (P > or = 0.17), whereas during the spring (from March 12 to May 7), addition of RG increased (P = 0.05) ADG. Using RG increased (P < or = 0.01) animal grazing-days/hectare and BW gain/hectare. Wheat tended (P = 0.08) to increase BW gain/hectare compared with the other SG, and O tended (P = 0.09) to produce less BW gain/hectare than the other SG. The treatment x year interaction was significant (P < or = 0.05) in Exp. 2. In yr 1, no differences (P = 0.25) were observed for ADG from December 23 to March 8, but during the spring grazing period (from March 8 to May 5), ADG of calves grazing TRG was less (P < or = 0.04) than that of those grazing RG, RRG, or WRG. The RRG combination produced more (P < or = 0.03) BW gain/hectare than ORG, RG, or TRG and tended (P = 0.06) to produce more BW gain/hectare than WRG. The WRG combination produced more (P < or = 0.05) BW gain/hectare than TRG and RG, and ORG tended (P = 0.09) to produce more BW gain/hectare than RG alone. Pastures planted to R or W produced more (P < or = 0.05) BW gain/hectare than RG alone or T. During yr 2, there were no differences (P > or = 0.44) in ADG, BW gain/hectare, or grazing-days/hectare. In conclusion, the choice of cool-season annual to establish is highly weather-dependent, but R and W are generally superior to other small grains, and RG is a necessary complement to SG when interseeding cool-season annuals into Bermudagrass sod.

Chemical composition and in situ dry matter and fiber disappearance of sorghum x Sudangrass hybrids

Three sorghum x Sudangrass hybrids were planted in twelve 0.2-ha plots to test the effect of date of harvest and hybrid on plant maturity, DM yield, chemical composition, and in situ DM and fiber disappearance. Sweet Sunny Sue (a non-brown midrib (BMR) hybrid; nonBMR), NutriPlus BMR (a BMR hybrid; NP-BMR), and Dry Stalk BMR (a BMR hybrid; DS-BMR) were planted on 26 June 2003 at 22.4 kg of seed/ha. Beginning 34 d after planting, plant height and phenological growth stage were assessed weekly in 10 random, 0.5-m(2) quadrats per plot. Plants were clipped to 2.5 cm in height and analyzed for CP, NDF, and ADF using near-infrared spectroscopy. Composite samples harvested from each plot on d 34, 48, and 63 were incubated in the rumen of 3 steers to determine the in situ disappearance of DM and NDF in a 3 x 3 Latin square. Forage yield was greater (P < or =0.02) for nonBMR than NP-BMR on d 41 and 55 and tended (P = 0.08) to be greater on d 48. The DS-BMR hybrid produced more (P = 0.04) forage DM than the NP-BMR on d 48. When DM yield was regressed on growth stage at harvest, BMR hybrids were predicted to produce 265 kg/ha more DM (P < 0.01) than nonBMR, at the late-boot stage. At all harvest dates, NDF concentrations were less (P < or =0.02) for BMR than nonBMR. The DS-BMR had greater (P < or =0.02) NDF concentrations than NP-BMR on d 41, 48, 55, and 63. Detergent fiber concentrations were predicted to be greater (P < 0.01) in nonBMR than BMR when regressed on growth stage at harvest, but the magnitude of the differences in fiber concentration diminished with growth stage. The A fractions of DM and NDF were greater (P < 0.01) and the C fraction was less (P < 0.01) for BMR hybrids than nonBMR. The B fraction of DM was not affected (P = 0.15) by hybrid type. The B fraction of NDF was not different (P = 0.28) on d 34 but was greater (P < 0.01) on d 48 and 63 for BMR than nonBMR. Effective degradability of NDF and DM was greater (P < 0.02) for BMR than nonBMR on all harvest dates. The A fraction of DM was less for DS-BMR than NP-BMR (P < 0.01), but the B and C fractions of NDF and DM did not differ (P > 0.13) between BMR hybrids. This research indicates that forage chemical composition and ruminal in situ disappearance are improved in the BMR sorghum x Sudangrass hybrids tested compared with the nonBMR. Yield reductions are commonly reported for BMR hybrids, but predicted DM yields in the current study were not reduced if harvested at a similar phenological growth stage.

Effect of crabgrass (Digitaria ciliaris) hay harvest interval on forage quality and performance of growing calves fed mixed diets

Twelve 0.81-ha crabgrass (Digitaria ciliaris [Retz.] Koel.) hay fields were harvested at 21, 35, and 49 d of regrowth (average phonological growth stage of 30, 51, and 56, respectively). Increased harvest interval exhibited a linear decrease (P < 0.01) in CP (14.1, 13.7, and 10.6% of DM, respectively) and increase (P < 0.01) in NDF (65.3, 70.6, and 70.2% of DM, respectively) and ADF (35.7, 38.9, and 42.7% of DM, respectively). Hays were incorporated into 3 diets that contained 20% (DM basis) crabgrass hay, ground corn (33%), and soybean hulls (32%). Diets contained 14.4, 14.4, and 13.6% CP; 1.83, 1.72, and 1.81 Mcal of NE(m)/kg; and 1.21, 1.10, and 1.17 Mcal of NE(g)/kg; respectively. Diets were fed to beef calves in 12 pens at a rate of 2.3% (DM basis) of BW in 1 experiment (n = 120, initial BW 210 +/- 4.4 kg) and ad libitum in another experiment (n = 60, initial BW 207 +/- 4.4 kg). To measure passage rate of the hay and concentrate portions of the diets, 12 heifer calves (BW = 145 +/- 4.5 kg) were individually fed at 2.3% of BW for 14 d and dosed with Dy-labeled soybean hulls and Yb-labeled hay. In situ DM digestibility of the hays and diets were determined using 3 ruminally cannulated steers (BW = 584 +/- 10.4 kg). Harvest interval did not affect (P > or = 0.11) ADG of limit-fed calves during the diet acclimation or growing phases (average 0.32 and 0.80 kg, respectively) or ADG of calves fed ad libitum (average 1.21 kg). Dry matter intake of calves fed ad libitum averaged 7.9 kg/d (3.28% of BW) and was not affected (P > or = 0.22) by harvest interval. Gain:feed was not affected (P > or = 0.20) by harvest interval (0.13 and 0.15 for limit-fed and ad libitum-fed calves, respectively). Increased harvest interval linearly increased (P < 0.01) ruminal retention time of the hay and tended (P = 0.06) to linearly increase ruminal retention time of the concentrate portions of the diet. Harvest interval linearly decreased (P < or = 0.05) the extent of degradability and effective degradability of DM and NDF of hays, but DM disappearance of the total diet did not differ (P > or = 0.35). In the conditions of this study, increasing harvest interval of crabgrass hay from 21 to 49 d had no deleterious impact on animal performance or efficiency of gain when fed to growing calves in a high-concentrate mixture.

Xenopus laevis peripherin (XIF3) is expressed in radial glia and proliferating neural epithelial cells as well as in neurons

Neuronal intermediate filament (nIF) proteins form the most abundant component of the axonal cytoskeleton. Thus, understanding their function and the regulation of their expression is essential for comprehending how axonal structure is regulated. Although most vertebrate nIF proteins are classified as type IV intermediate filament (IF) proteins, additional nIF proteins exist in frogs (Xenopus laevis), cyprinid fishes, and mammals (called XIF3, plasticin, and peripherin, respectively) that are classified as type III. Expression of a type III nIF protein is correlated strongly with the earliest phases of axonal outgrowth in fishes but less so in mammals. To understand better how the correlation between type III nIF protein expression and early phases of axonal outgrowth has changed during evolution, the authors examined XIF3 expression in Xenopus laevis. In Xenopus, the association between XIF3 expression and early axonal outgrowth was especially strong. For example, during early axonal development, XIF3 expression preceded and was more abundant and widespread than that of any of the type IV nIF proteins. As axons matured, neuronal expression of XIF3 gradually became more restricted while that of type IV nIF proteins increased. These results support the idea that type III nIF proteins play a special role during early phases of axonal outgrowth. In addition to finding XIF3 in neurons, the authors also unexpectedly found it in regions of the central nervous system that contain proliferating cells and radial glia. As a framework for interpreting variations in nIF expression in different vertebrate species, the authors built phylogenetic trees to clarify relationships among vertebrate nIF proteins. These trees supported the classification of XIF3, plasticin, and peripherin as orthologs (products of the same genetic locus, evolving separately only since the species lineages diverged). Thus, XIF3, plasticin, and peripherin probably should be referred to as Xenopus, fish, and mammalian peripherin, respectively. This finding argues that differences in expression of these three proteins in frogs, fishes, and mammals are the result of regulatory changes to the peripherin ancestral gene along each lineage. The expression of a peripherin ortholog in Xenopus glia may represent either an adaptation that arose since the divergence of Xenopus from mammals or, alternatively, a feature retained from an ancestral IF protein that was expressed originally both in neurons and in glia.

Primate evolution - in and out of Africa

A synthetic analysis of molecular, fossil and biogeographical data gives a remarkably consistent scenario for the evolution of the catarrhine primates - the hominoids and Old World monkeys. This analysis supports the African location of the common ancestor of the Old World monkeys, and suggests that the Asian colobine monkeys and macaques dispersed out of Africa into Eurasia within the past ten million years. More interestingly and controversially, this analysis further suggests that the lineage leading to the living hominoids dispersed out of Africa about twenty million years ago, and that the common ancestor of the living African apes, including humans, migrated back into Africa from Eurasia within about the past ten million years.

Episodic adaptive evolution of primate lysozymes

Although the darwinian concept of adaptation was established nearly a century ago, it has been difficult to demonstrate rigorously that the amino-acid differences between homologous proteins from different species have adaptive significance. There are currently two major types of sequence tests for positive darwinian selection on proteins from different species: sequence convergence, and neutral rate violation (reviewed in ref. 1). Lysozymes from the stomachs of cows and langur monkeys, two mammalian species displaying fermentation in the foregut, are an example of amino-acid sequence convergence among homologous proteins. Here we combine tests of neutral rate violation with reconstruction of ancestral sequences to document an episode of positive selection on the lineage leading to the common ancestor of the foregut-fermenting colobine monkeys. This analysis also detected a previously unsuspected adaptive episode on the lineage leading to the common ancestor of the modern hominoid lysozymes. Both adaptive episodes were followed by episodes of negative selection. Thus this approach can detect adaptive and purifying episodes, and localize them to specific lineages during protein evolution.

A quick, direct method that can differentiate expressed mitochondrial genes from their nuclear pseudogenes

Direct sequencing of mitochondrial DNA (mtDNA) following amplification using the polymerase chain reaction (PCR) has found widespread use in population genetic and phylogenetic research over the past few years. Recently, nuclear copies of mitochondrial genes have been reported in diverse eukaryotic species, often confounding such research (reviewed in [2,3]). Under certain circumstances, nuclear pseudogenes can be amplified more efficiently than the intended mtDNA target, even when using as template mtDNA that has been purified by gradient centrifugation. If the transfer of the gene copy to the nucleus happened recently, it can be difficult-if not impossible-to identify the legitimate mitochondrial sequence. Here, we present a simple method that can identify expressed mitochondrial genes, using the cytochrome b gene of the particularly problematical proboscis monkey as an example. Because mtDNA is transcribed and processed into polyadenylated mRNAs reverse transcription coupled to PCR can be used to amplify the expressed mitochondrial version. This method produced an unambiguous sequence for the proboscis monkey mitochondrial cytochrome b gene; in contrast, traditional DNA-based PCR methods produced ambiguous sequence, because many nuclear pseudogenes were present. Phylogenetic analysis of the cytochrome b gene suggests that the proboscis monkey groups with the Asian langurs, rather than forming a sister taxon to all Asian and African colobines as was previously suggested. Reverse transcriptase-coupled PCR should be applicable to many other cases of nuclear transfer of mtDNA, including those involving ribosomal genes.

Insertions and duplications of mtDNA in the nuclear genomes of Old World monkeys and hominoids

Using oligonucleotide primers designed to match conserved regions of mammalian mitochondrial DNA (mtDNA), we have amplified and sequenced two divergent cytochrome b nuclear pseudogenes from orangutan cellular DNA. Evolutionary analysis suggests that a nuclear transfer occurred about 30 million years ago on the lineage leading to the catarrhines (Old World monkeys and hominoids), and involved a long (at least 3 kilobases), probably damaged, piece of mtDNA. After this transfer, the pseudogene duplicated, giving rise to the two copies that are probably present in all hominoids, including humans. More recent transfers involving the entire cytochrome b gene have also occurred in the Old World monkeys. Such nuclear copies of mtDNA can confound phylogenetic and population genetic studies, and be an insidious source of DNA contamination of 'ancient' and forensic DNA. Indeed, contamination with these anciently transferred human pseudogenes is almost certainly the source of the cytochrome b sequences recently reported from 'dinosaur bone DNA'.

Aloe vera, hydrocortisone, and sterol influence on wound tensile strength and anti-inflammation

Aloe vera at doses of 100 and 300 mg/kg daily for 4 days blocked the wound healing suppression of hydrocortisone acetate up to 100% using the wound tensile strength assay. This response was because of the growth factors present in A. vera masking the wound healing inhibitors such as sterols and certain amino acids. The sterols showed good anti-inflammatory activity (-36%) in reducing the croton oil-induced ear swelling. This activity displayed a dose-response relationship.

Molecular evolution. Dissolving the barriers

The crystal structure of lysin, a protein involved in abalone fertilization, together with evolutionary sequence analysis, provides clues to lysin's non-enzymatic mode of action and possible role in speciation.

Multiple cDNA sequences of bovine tracheal lysozyme

The principal role of lysozyme is to prevent bacterial invasion at body surfaces. We are interested in how lysozyme is regulated at the surface of the respiratory tract, where the serous gland cell is regarded as the primary cellular source of this enzyme. Since the cow genome contains at least 10 lysozyme-like genes, our objective was to determine which of them are expressed in the cow tracheal gland serous cell. By screening tracheal cDNA libraries with a probe constructed from the cDNA encoding stomach lysozyme 2, we obtained 3 lysozyme cDNAs: 5a (1023 base pairs (bp)), 7a (1060 bp), and 14d (1249 bp). cDNA 7a corresponds to a previously reported gene (showing sequence identity to the stomach 2 lysozyme gene), whereas cDNAs 5a and 14d correspond to lysozyme genes not previously reported. Northern blot analysis of cow tracheal RNA showed lysozyme mRNAs of three distinct lengths. Based on hybridization with probes specific for each cDNA, we determined that the longest transcript corresponded to cDNA 5a, the shortest to 7a, and the intermediate-length transcript to 14d. Cultured cow tracheal gland serous cell RNA, reverse transcribed and amplified by the polymerase chain reaction with primers common to all three cDNAs, yielded a product that hybridized to oligonucleotide probes specific for all three cDNAs but most strongly to that for 5a. These results indicate that multiple lysozyme mRNAs are expressed in the cow trachea and that the lysozyme encoded by cDNA 5a is the major form expressed in the tracheal gland serous cell. This serous cell lysozyme is predicted to differ importantly in structure from both 7a and 14d lysozymes, with an arginine:lysine ratio almost 10-fold higher. The sequence differences may underlie functional differences, including variable resistance to proteolysis and variable affinity for large polyanions (e.g. mucins) found in the respiratory tract lumen.

The powers and pitfalls of parsimony

Parsimony analysis is a powerful tool for the study of biological evolution. It is used to construct phylogenetic trees, to evaluate alternative hypotheses objectively, and to study evolutionary pattern and process. Yet, as comparative data sets expand, the pitfalls of parsimony analysis are catching experts and novices alike.

Human skin mast cell carboxypeptidase: functional characterization, cDNA cloning, and genealogy

We functionally characterized human skin mast cell carboxypeptidase A (MC-CPA), and explored its evolutionary relationship to other carboxypeptidases to understand further the structural basis for the substrate preferences of this enzyme. Purified human skin MC-CPA displayed more activity than did bovine pancreatic carboxypeptidase A (CPA) against carboxyl-terminal leucine residues, about equal activity with phenylalanine and tyrosine residues, and no activity with tryptophan or alanine. To correlate kinetic data with structure, we isolated and sequenced a cDNA encoding MC-CPA from human skin, and directly sequenced 30% of the purified protein. These sequences agreed with that of human lung MC-CPA, and further support the evidence for a single MC-CPA gene in humans. Four amino acid replacements, resulting in a net positive change in non-hydrogen atoms in the S1' subsite of MC-CPA, were associated with less alteration in substrate specificity, relative to bovine CPA, than might be expected from studies using rat CPA1 and CPA2. We noted two consensus N-linked glycosylation sites in human MC-CPA that are not found in rat and mouse MC-CPA, or in bovine CPA; that at least one of these sites is glycosylated in vivo was verified by N-glycosidase F treatment, lentil lectin binding, and Concanavalin A-Sepharose chromatography. Evolutionary trees constructed from the known carboxypeptidase sequences suggested that MC-CPA most likely evolved from a carboxypeptidase B-like enzyme, independent of the pancreatic CPA. Thus, in the carboxypeptidase gene family, MC-CPA displays a unique genealogy and several amino acid replacements in its S1' binding pocket that result in substrate specificity quite similar to bovine CPA.

Structural evolution of an enzyme specificity. The structure of rat carboxypeptidase A2 at 1.9-A resolution

The structure of rat carboxypeptidase A2 (CPA2), which has a unique specificity for tryptophan-containing COOH-terminal peptides, has been determined in an unliganded state at 1.9-A resolution and refined to a crystallographic R-factor of 18.3%. Comparison of the structure of CPA2 with that of bovine carboxypeptidase A (referred to here as CPA1) reveals that the specificity of the former for larger amino acids probably arises from two amino acid replacements within the binding cavity (Thr268----Ala and Leu203----Met), coupled with differences in the positions of conserved residues in a surface loop on one face of the specificity pocket. The position of the reactive-site surface loop may be affected also by a disulfide bridge between Cys210 and Cys244. In this unliganded form of the enzyme, Tyr248 takes up a position interior to the specificity pocket and is distinct from that observed in bovine CPA1. The structural differences between CPA1 and CPA2 correlate strongly with crystallographically determined temperature factors and thus appear to be largest where the enzyme is flexible.

Episodic evolution in the stomach lysozymes of ruminants

By sequencing lysozymes c from deer and pig stomachs and comparing them to the known amino acid sequences of other lysozymes c, it was possible to examine the rate of sequence change during and after the period in which this enzyme acquired a new function. Evolutionary tree analysis suggests that the rate went up while lysozyme was being recruited to function as a digestive enzyme in the stomach of early ruminants. Later, presumably after lysozyme was well adapted for functioning in the new environment, which contains acid, pepsin, and fermentation products, the rate of amino acid replacement became subnormal.

Antigenic Crossreactivity between Bacterial and Plant Cytochrome P-450 Monoxygenases

Although cytochrome P-450 monoxygenases mediate critical reactions in plant microsomes, characterization of their activities has been difficult due to their inherent instability and the lack of a crossreacting P-450 antibody. We have surveyed the effects of protein stabilizing agents on t-cinnamic acid hydroxylase (t-CAH), a prominent microsomal P-450, and on total P-450 monoxygenase content. Trans-cinnamic acid is the most effective protecting agent for t-CAH activity. Leupeptin, a broad spectrum protease inhibitor, stabilizes t-CAH activity and increases the apparent P-450 content more than serine protease inhibitors such as phenylmethylsulfonyl fluoride. The combination of t-cinnamic acid and protease inhibitors increase the level of detectable t-CAH activity 4- to 14-fold over the levels detected by previously published procedures. In order to estimate the molecular weights and diversity of the plant P-450 monoxygenases in wounded pea epicotyls, we have prepared two polyclonal antibodies against the Pseudomonas putida camphor hydroxylase (P-450(cam)). One of the heterologous antibodies cross-reacts with constitutive microsomal polypeptides between 52 and 54 kilodaltons and several pea (Pisum sativum L.) mitochondrial proteins between 47 and 48 kilodaltons. The other polyclonal antibody cross-reacts strongly with two wound-induced polypeptides (65 and 47 kilodaltons) and weakly with one constitutive polypeptide (58 kilodaltons). We conclude that at least two subclasses of plant P-450 monoxygenases share common epitopes with the bacterial P-450 enzyme.

A novel rat carboxypeptidase, CPA2: characterization, molecular cloning, and evolutionary implications on substrate specificity in the carboxypeptidase gene family

A new member of the carboxypeptidase gene family, carboxypeptidase A2 (CPA2), has been identified from the predicted amino acid sequence of a rat pancreatic cDNA clone. In vivo recombination and in situ hybridization techniques employing the CPA2 cDNA resulted in the isolation of two genomic clones spanning the 25-kilobase pair rat CPA2 gene. Evolutionary trees built from the amino acid sequences of the known pancreatic carboxypeptidases show that CPA2 and carboxypeptidase A1 (CPA1) are the products of genes which duplicated before the mammalian radiation, and that bovine CPA is of the A1 type. The substrate specificities of CPA1 and CPA2 isolated from rat pancreas are similar to bovine CPA in that carboxyl-terminal amino acids with aromatic or branched aliphatic side chains are preferred. However, the substrate preference of rat CPA1 is skewed toward smaller amino acids, while that of rat CPA2 is skewed toward bulkier amino acids as compared to bovine CPA. The differences in the substrate specificities of these three carboxypeptidases are compatible with the nature of the amino acid replacements in their binding pockets for the carboxylterminal amino acid of the substrate.

Adaptive evolution in the stomach lysozymes of foregut fermenters

The convergent evolution of a fermentative foregut in two groups of mammals offers an opportunity to study adaptive evolution at the protein level. The appearance of this mode of digestion has been accompanied by the recruitment of lysozyme as a bacteriolytic enzyme in the stomach both in the ruminants (for example the cow) and later in the colobine monkeys (for example the langur). The stomach lysozymes of these two groups share some physicochemical and catalytic properties that appear to adapt them for functioning in the stomach fluid. To examine the basis for these shared properties, we sequenced langur stomach lysozyme and compared it to other lysozymes of known sequence. Tree analysis suggest that, after foregut fermentation arose in monkeys, the langur lysozyme gained sequence similarity to cow stomach lysozyme and evolved two times faster than the other primate lysozymes. This rapid evolution, coupled with functional and sequence convergence upon cow stomach lysozyme, could imply that positive darwinian selection has driven about 50% of the evolution of langur stomach lysozyme.

Thiamine deficiency and glyoxylic acid

The effect of thiamine deficiency on glyoxylic acid metabolism in mice and rats was investigated to determine whether the vitamin deficiency results in gross effects on glyoxylate levels via an alteration in the activity of alpha-ketoglutarate:glyoxylate carboligase. Thiamine-deprived or pyrithiamine-treated mice did not show a decreased oxidation of [1-14C]glyoxylate to respiratory CO2; there was some decrease in the conversion of [2-14C]glyoxylate into CO2 by pyrithiamine-treated mice, but not by thiamine-deprived animals. Dietary thiamine deprivation caused a decrease in carboligase levels in liver but no effect on levels in three brain regions. Pyrithiamine treatment had no significant effect on liver carboligase activities, but did decrease the levels in cerebrum, cerebellum and brainstem. Thiamine-deprived and pyrithiamine-treated mice showed decreased urinary glycolic acid excretion Glyoxylic acid excretion by thiamine-deprived rats was monitored in order to re-examine a previous report by another laboratory that glyoxyluria occurs under these conditions. Trace amounts of glyoxylate could be detected in the urine of rats fed thiamine-deficient diet for 3-5 weeks, but urinary glyoxylate was not detectable at later stages of thiamine deprivation. These results do not support a significant role for alpha-ketoglutarate:carboligase activity in the primary etiology of thiamine deficiency syndromes.

Rapid fluorometric analysis of unbound salicylate in whole blood

A method has been developed for the analysis of unbound salicylate by membrane cone ultrafiltration of either whole blood or plasma with quantitation by spectrofluorometry. The method was used to study the distribution of salicylate in whole blood over a wide range of concentrations. It was found that at a concentration of 50 ug/ml in whole blood only 9% of the salicylate is present as free drug in the plasma water, while at a concentration of 500 ug/ml, 23% is free. At concentrations exceeding 500 ug/ml the plasma protein binding sites appear to be fully satrated since the free drug concentration increases linearly with respect to the whole blood concentration. Changes in hematocrit have a relatively minor effect on the ultrafiltrate salicylate concentration. The blood/plasma salicylate concentration ratio was found to vary widely over the blood salicylate range studied, 50-1000 ug/ml.

How accurate and relevant are physician manpower statistics?

Images