Evaluation of different approaches to individual tree growth and survival modelling using data collected at irregular intervals - a case study for Pinus patula in Kenya

Background： The minimum set of sub-models for simulating stand dynamics on an individual-tree basis consists of tree-level models for diameter increment and survival. Ingrowth model is a necessary third component in uneven-aged management. The development of this type of model set needs data from permanent plots, in which all trees have been numbered and measured at regular intervals for diameter and survival. New trees passing the ingrowth limit should also be numbered and measured. Unfortunately, few datasets meet all these requirements. The trees may not have numbers or the length of the measurement interval varies. Ingrowth trees may not have been measured, or the number tags may have disappeared causing errors in tree identification. Methods： This article discussed and demonstrated the use of an optimization-based approach to individual-tree growth modelling, which makes it possible to utilize data sets having one or several of the above deficiencies. The idea is to estimate all parameters of the sub-models of a growth simulator simultaneously in such a way that, when simulation begins from the diameter distribution at the first measurement occasion, it yields a similar ending diameter distribution as measured in the second measurement occasion. The method was applied to Pinus patula permanent sample plot data from Kenya. In this dataset, trees were correctly numbered and identified but measurement interval varied from 1 to 13 years. Two simple regression approaches were used and compared to the optimization-based model recovery approach. Results： The optimization-based approach resulted in far more accurate simulations of stand basal area and number of surviving trees than the equations fitted through regression analysis. Conclusions： The optimization-based modelling approach can be recommended for growth modelling when the modelling data have been collected at irregular measurement intervals.     

Dynamics of microbial biomass and soil fauna in two contrasting soils cropped to barley (Hordeum vulgare L.)

Summary This study compared the dynamics of shoots, roots, microbial biomass and faunal populations in two different soils cropped to barley. The dynamics of microbial C, protozoa, nematodes, acari, collembola, shoot and root mass were measured between July and October under barley at Ellerslie (Black Chernozem, Typic Cryoboroll) and Breton (Gray Luvisol, Typic Cryoboralf) in central Alberta. Very wet soil conditions in early July reduced the barley yield at Breton. The peak shoot mass was greater at Ellerslie (878 g m^–2) compared to Breton (582 g m^–2), but the root mass did not differ significantly between sites. Microbial C at 0–30 cm depth was greater at Ellerslie (127 g m^–2) than Breton (68 g m^–2). The average protozoa population (no. m^–2) did not differ significantly between sites. The average nematode population at 0–20 cm depth was greater at Ellerslie (5.1 × 10⁶ no. m^–2) compared to Breton (1.0 × 10⁶ no. m^–2) Acari and collembola populations at 0–10 cm depth at Ellerslie (43 × 10³ and 43 × 10² no. m^–2), respectively) were greater than at Breton (2 × 10⁴ and 9 × 10² no. m^–2) respectively). Tenday laboratory incubations of 0–10 cm soil samples from Ellerslie evolved more CO₂-C (120 g g^–1 soil) compared to samples from Breton (97 g g^–1 soil), but the CO₂-C evolution did not differ when expressed on an area basis (g m^–2) due to the greater soil bulk density at Breton. The soil from Breton respired twice as much CO₂-C when expressed as a proportion of soil C and 1.5 times as much CO₂-C when expressed as a proportion of microbial C, compared to the soil from Ellerslie. The greater CO₂-C: microbial C ratio, lower flush C:N ratio, and greater protozoa population: soil C ratio at Breton compared to Ellerslie suggest that the food web was relatively more active at Breton and was related to greater C availability and water availability at Breton.     

Influence of texture on habitable pore space and bacterial-protozoan populations in soil

Summary Soil texture affects pore space, and bacterial and protozoan populations in soil. In the present study we tested the hypothesis that bacteria are more protected from protozoan predation in fine-textured soils than in coarse-textured soils because they have a larger volume of protected pore space available to them. The experiment consisted of three sterilized Orthic Black Chernozemic soils (silty clay, clay loam, and sandy loam) inoculated with bacteria, two treatments (with and without protozoa), and five sampling dates. The soils were amended with glucose and mineral N on day 0. On day 4 bacterial numbers in all three soils were approximately 3×10⁹ g^–1 soil. The greatest reduction in bacteria due to protozoan grazing occurred between day 4 and day 7. Compared to the treatment without protozoa, bacteria in the treatment with protozoa were reduced by 68, 50, and 75% in the silty clay, clay loam, and sandy loam, respectively. On day 4, 2 days after the protozoan inoculation, all protozoa were active. The numbers were 10330, 4760, and 15 380 g^–1 soil for the silty clay, clay loam, and sandy loam, respectively. Between day 4 and day 7, the period of greatest bacterial decline, total protozoa increased greatly to 150480, 96160, and 192100 g^–1 soil for the three soils, respectively. Most protozoa encysted by day 7. In all soils the addition of protozoa significantly increased CO₂–C evolution per g soil relative to the treatment without protozoa. Our results support the hypothesis that bacteria are more protected from protozoan predation in fine-textured soils than in coarse-textured soils.     

Combining ability and testcross performance of drought‐tolerant maize inbred lines under stress and non‐stress environments in Kenya

Drought and poor soil fertility are among the major abiotic stresses affecting maize productivity in sub‐Saharan Africa. Maize breeding efforts at the International Maize and Wheat Improvement Center (CIMMYT) have focused on incorporating drought stress tolerance and nitrogen‐use efficiency (NUE) into tropical maize germplasm. The objectives of this study were to estimate the general combining ability (GCA) and specific combining ability (SCA) of selected maize inbred lines under drought stress (DS), low‐nitrogen (LN) and optimum moisture and nitrogen (optimum) conditions, and to assess the yield potential and stability of experimental hybrids under these management conditions. Forty‐nine experimental three‐way cross hybrids, generated from a 7 × 7 line by tester crosses, and six commercial checks were evaluated across 11 optimum, DS and LN sites in Kenya in 2014 using an alpha lattice design with two replicates per entry at each site. DS reduced both grain yield (GY) and plant height (PH), while anthesis–silking interval (ASI) increased under both DS and LN. Hybrids ‘L4/T2’ and ‘L4/T1’ were found to be superior and stable, while inbreds ‘L4’ and ‘L6’ were good combiners for GY and other secondary traits across sites. Additive variance played a greater role for most traits under the three management conditions, suggesting that further progress in the improvement of these traits should be possible. GY under optimum conditions was positively correlated with GY under both DS and LN conditions, but GY under DS and LN was not correlated. Our results suggest the feasibility for simultaneous improvement in grain yield performance of genotypes under optimum, DS and LN conditions.     

Genetic analysis of tropical maize inbred lines for resistance to maize lethal necrosis disease

Maize lethal necrosis (MLN) disease is a recent outbreak in eastern Africa and has emerged as a significant threat to maize production in the region. The disease is caused by the co-infection of Maize chlorotic mottle virus and any member of potyviridae family. A total of 28 maize inbred lines with varying levels of tolerance to MLN were crossed in a half-diallel mating design, and the resulting 340 F₁ crosses and four commercial checks were evaluated under MLN artificial inoculation at Naivasha, Kenya in 2015 and 2016 using an alpha lattice design with two replications. The objectives of the study were to (i) investigate the magnitude of general combining ability variance (σ _GCA ² ) and specific combining ability variance (σ _SCA ² ) and their interaction with years; (ii) evaluate the efficiencies of GCA based prediction and hybrid performance by means of a cross-validation procedure; (iii) estimate trait correlations in the hybrids; and (iv) identify the MLN tolerant single cross hybrids to be used as female parents for three-way cross hybrids. Results of the combined analysis of variance revealed that both GCA and SCA effects were significant (P < 0.05) for all traits except for ear rot. For MLN scores at early and late stages, GCA effects were 2.5–3.5 times higher than SCA effects indicating that additive gene action is more important than non-additive gene action. The GCA based prediction efficiency for MLN resistance and grain yield accounted for 67–90% of the variations in the hybrid performance suggesting that GCA-based prediction can be proposed to predict MLN resistance and grain yield prior to field evaluation. Three parents, CKDHL120918, CML550, and CKLTI0227 with significant GCA effects for GY (0.61–1.21; P < 0.05) were the most resistant to MLN. Hybrids “CKLTI0227 × CML550”, “CKDHL120918 × CKLTI0138”, and “CKDHL120918 × CKLTI0136” ranked among the best performing hybrids with grain yield of 6.0–6.6 t/ha compared with mean yield of commercial check hybrids (0.6 t/ha). The MLN tolerant inbred lines and single cross hybrids identified in this study could be used to improve MLN tolerance in both public and private sector maize breeding programs in eastern Africa.     

Antioxidant mechanisms of enzymatic hydrolysates of beta-lactoglobulin in food lipid dispersions

The antioxidant activities of aqueous phase beta-lactoglobulin (beta-Lg) and its chymotryptic hydrolysates (CTH) were compared in this study. Proteins and peptides have been shown to inhibit lipid oxidation reactions in oil-in-water emulsions; however, a more fundamental understanding of the antioxidant activity of these compounds in dispersed food lipid systems is lacking. CTH was more effective than an equivalent concentration of beta-Lg in retarding lipid oxidation reactions when dispersed in the continuous phase of Brij-stabilized oil-in-water emulsions (pH 7). Furthermore, it was observed that CTH had higher peroxyl radical scavenging and iron-binding values than beta-Lg. Liquid chromatography-mass spectrometry (LC-MS) was used to measure the rate of oxidation of three oxidatively labile amino acid residues (Tyr, Met, and Phe) in certain CTH peptide fragments. Significant oxidation of specific Tyr and Met residues present in two separate 12 amino acid peptide fragments was observed in the days preceding lipid oxidation (39 and 55% of Tyr and Met were oxidized, respectively, by day 4 of the study); however, no significant oxidation of the Phe residue present in a specific 14 amino acid peptide fragment could be observed during the same time period. These data could suggest that Met and Tyr residues are capable of scavenging radical species and have the potential to improve the oxidative stability dispersed food lipids.     

Shoot,root, soil and microbial nitrogen dynamics in two contrasting soils cropped to barley (Hordeum vulgare L.)

Summary Dynamics of barley N, mineral N, and organic N were compared at Ellerslie (Black Chernozem, Typic Cryoboroll) and Breton (Gray Luvisol, Typic Cryoboralf) in central Alberta, using ¹⁵N-urea. On average, shoot N and shoot ¹⁵N recoveries at Ellerslie (14.1 g m^–2, 36%) were greater than at Breton (4.5 g m^–2, 17%). Root N (g m^–2) did not significantly differ between sites (0–30 cm) but root ¹⁵N recovery was greater at Breton (3.4%) than Ellerslie (1.8%). Low levels of shoot N and shoot ¹⁵N at Breton were partly due to very wet soil conditions in July, which resulted in premature shoot senescence and low plant N uptake. Although the total ¹⁵N recoveries from the system (to 30 cm depth) at Ellerslie (63%) and Breton (56%) were similar, soil ¹⁵N was greater at Breton (35%) than at Ellerslie (26%). There were no differences in mineral N between sites but the average ¹⁵N recovery in the mineral-N pool was significantly greater at Ellerslie (3.3%) than at Breton (1.6%). There was no difference in ¹⁵N recovery in the microbial biomass (3%) between sites, although non-microbial organic ¹⁵N was greater at Breton (31 %) than at Ellerslie (20%). The two soils showed differences in the relative size of kinetically active N pools and in relative mineralization rates. Microbial N (0–30 cm) was greater at Ellerslie (13.3 g m^–2) than at Breton (9.9 g m^–2), but total microbial N made up a larger proportion of total soil N at Breton (1.6%) than at Ellerslie (0.9%). In the 0–10 cm interval, microbial N was 1.7-fold greater and non-microbial active N was 3-fold greater at Breton compared to Ellerslie, when expressed as a proportion of total soil N. Net N mineralization in a 10-day laboratory incubation was 1.4-fold greater in the Black Chernozem (0–10 cm interval) from Ellerslie, compared to the Gray Luvisol from Breton, when expressed per gram of soil. Net N mineralization in the soil from Breton was double that of the soil from Ellerslie, when expressed as a proportion of soil N. Although soil N (g m^–2) was 2.5-fold greater at Ellerslie compared to Breton, it was cycled more rapidly at Breton.     

Isolation,identification and associated risk factors of non‐tuberculous mycobacteria infection in humans and dromedary camels in Samburu County,Kenya

Non‐tuberculous mycobacteria are of public health significance, and zoonotic infection is attributed to the sociocultural practice of consumption of raw milk and the close human–livestock contact in pastoral communities. This study aimed at isolation, identification of mycobacteria from human sputum and camel milk and risk factors assessment in Samburu East, Kenya. Six hundred and twelve camels and 48 people presumed to have tuberculosis (TB) from 86 households in Wamba and Waso regions were screened. Camels were categorized into Somali, Turkana and Rendile breeds. Single intradermal comparative tuberculin test (SICTT) was used as a herd‐screening test on lactating camels and a milk sample collected from reactive camels. Sputum samples were collected from eligible members of participating households. A standard questionnaire on possible risk factors for both humans and camels was administered to respective household heads or their representatives. Total camel skin test reactors were 238/612 (38.9%). Milk and sputum samples were analysed at KEMRI/TB research laboratory for microscopy, GeneXpert^®, culture and identification. Isolates were identified using 16S rRNA gene sequencing at Inqaba biotec in South Africa. Sixty‐four isolates were acid‐fast bacilli (AFB) positive of which M. fortuitum (3), M. szulgai (20), M. monacense (5), M. lehmanni (4), M. litorale (4), M. elephantis (3), M. duvalii (3), M. brasiliensis (1), M. arcueilense (1) and M. lentiflavum (1) were from milk; M. fortuitum (1), M. szulgai (2) and M. litorale (1) were from humans. Risk factors included the following: Turkana breed (OR = 3.4; 95% CI: 1.2–9.3), replacements from outside the County (OR = 2.1; 95% CI: 0.3–12.3), presence of other domestic species (small stock; OR = 4.6) and replacement from within the herd (OR = 3.2; 95% CI: 0.7–14.7). Zoonotic risk practices included raw milk consumption, shared housing and handling camels. Monitoring of zoonotic NTM through surveillance and notification systems is required.     

A bimetallic hydroformylation catalyst: high regioselectivity and reactivity through homobimetallic cooperativity

The racemic and meso diastereomers of an electron-rich binucleating tetraphosphine ligand have been used to prepare homobimetallic rhodium norbornadiene complexes. The racemic bimetallic Rh complex is an excellent hydroformylation catalyst for 1-alkenes, giving both a high rate of reaction and high regioselectivity for linear aldehydes, whereas the meso complex is considerably slower and less selective. A mechanism involving bimetallic cooperativity between the two rhodium centers in the form of an intramolecular hydride transfer is proposed. Mono- and bimetallic model complexes in which the possibility for bimetallic cooperativity has been reduced or eliminated are very poor catalysts.