Development of forest structure and leaf area in secondary forests regenerating on abandoned pastures in central Amazônia

Copyright ©2005 American Meteorological Society, American Geophysical Union (AGU), Association of American Geographers (AAG). Earth Interactions is available at http://earthinteractions.org/The area of secondary forest (SF) regenerating from pastures is increasing in the Amazon basin; however, the return of forest and canopy structure following abandonment is not well understood. This study examined the development of leaf area index (LAI), canopy cover, aboveground biomass, stem density, diameter at breast height (DBH), and basal area (BA) by growth form and diameter class for 10 SFs regenerating from abandoned pastures. Biomass accrual was tree dominated, constituting ≥94% of the total measured biomass in all forests abandoned ≥4 to 6 yr. Vine biomass increased with forest age, but its relative contribution to total biomass decreased with time. The forests were dominated by the tree Vismia spp. (>50%). Tree stem density peaked after 6 to 8 yr (10 320 stems per hectare) before declining by 42% in the 12- to 14-yr-old SFs. Small-diameter tree stems in the 1–5-cm size class composed >58% of the total stems for all forests. After 12 to 14 yr, there was no significant leaf area below 150-cm height. Leaf area return (LAI = 3.2 after 12 to 14 yr) relative to biomass was slower than literature-reported recovery following slash-and-burn, where LAI can reach primary forest levels (LAI = 4–6) in 5 yr. After 12 to 14 yr, the colonizing vegetation returned some components of forest structure to values reported for primary forest. Basal area and LAI were 50%–60%, canopy cover and stem density were nearly 100%, and the rapid tree-dominated biomass accrual was 25%–50% of values reported for primary forest. Biomass accumulation may reach an asymptote earlier than expected because of even-aged, monospecific, untiered stand structure. The very slow leaf area accumulation relative to biomass and to reported values for recovery following slash-and-burn indicates a different canopy development pathway that warrants further investigation of causes (e.g., nutrient limitations, competition) and effects on processes such as evapotranspiration and soil water uptake, which would influence long-term recovery rates and have regional implications

Carbon and nutrient accumulation in secondary forests regenerating on pastures in central Amazonia

Copyright by the Ecological Society of America ©2004. Feldpausch, TR, Rondon, MA, Fernandes, ECM, Riha, SJ and Wandelli, E (2004) Carbon and nutrient accumulation in secondary forests regenerating on pastures in central Amazonia. Ecological Applications, 14 (4). S164 - S176 . ISSN 1051-0761 http://dx.doi.org/10.1890/01-6015Over the past three decades, large expanses of forest in the Amazon Basin were converted to pasture, many of which later degraded to woody fallows and were abandoned. While the majority of tropical secondary forest (SF) studies have examined post-deforestation or post-agricultural succession, we examined post-pasture forest recovery in 10 forests ranging in age from 0 to 14 years since abandonment. We measured aboveground biomass and soil nutrients to 45 cm depth and computed total site carbon (C) and nutrient stocks to gain an understanding of the dynamics of nutrient and C buildup in regenerating SF in central Amazonia. Aboveground biomass accrual was rapid, 11.0 Mg·ha−1·yr−1, in the young SFs. Within 12–14 yr, they accumulated up to 128.1 Mg/ha of dry aboveground biomass, equivalent to 25–50% of primary forest biomass in the region. Wood nitrogen (N) and phosphorus (P) concentrations decreased with forest age. Aboveground P and calcium (Ca) stocks accumulated at a rate of 1.2 and 29.4 kg·ha−1·yr−1; extractable soil P stocks declined as forest age increased. Although soil stocks of exchangeable Ca (207.0 ± 23.7 kg/ha) and extractable P (8.3 ± 1.5 kg/ha) were low in the first 45 cm, both were rapidly translocated from soil to plant pools. Soil N stocks increased with forest age, probably due to N fixation, atmospheric deposition, and/or subsoil mining. Total soil C storage to 45 cm depth ranged between 42 and 84 Mg/ha, with the first 15 cm storing 40–45% of the total. Total C accrual (7.04 Mg C·ha−1·yr−1) in both aboveground and soil pools was similar or higher than values reported in other studies. Tropical SFs regrowing on lightly to moderately used pasture rapidly sequester C and rebuild total nutrient capital following pasture abandonment. Translocation of some nutrients from deep soil (>45 cm depth) may be important to sustaining productivity and continuing biomass accumulation in these forests. The soil pool represents the greatest potential for long-term C gains; however, soil nutrient deficits may limit future productivity

siRNA–Mediated Methylation of Arabidopsis Telomeres

Chromosome termini form a specialized type of heterochromatin that is important for chromosome stability. The recent discovery of telomeric RNA transcripts in yeast and vertebrates raised the question of whether RNA–based mechanisms are involved in the formation of telomeric heterochromatin. In this study, we performed detailed analysis of chromatin structure and RNA transcription at chromosome termini in Arabidopsis. Arabidopsis telomeres display features of intermediate heterochromatin that does not extensively spread to subtelomeric regions which encode transcriptionally active genes. We also found telomeric repeat–containing transcripts arising from telomeres and centromeric loci, a portion of which are processed into small interfering RNAs. These telomeric siRNAs contribute to the maintenance of telomeric chromatin through promoting methylation of asymmetric cytosines in telomeric (CCCTAAA)n repeats. The formation of telomeric siRNAs and methylation of telomeres relies on the RNA–dependent DNA methylation pathway. The loss of telomeric DNA methylation in rdr2 mutants is accompanied by only a modest effect on histone heterochromatic marks, indicating that maintenance of telomeric heterochromatin in Arabidopsis is reinforced by several independent mechanisms. In conclusion, this study provides evidence for an siRNA–directed mechanism of chromatin maintenance at telomeres in Arabidopsis

The Candida albicans Ku70 Modulates Telomere Length and Structure by Regulating Both Telomerase and Recombination

The heterodimeric Ku complex has been shown to participate in DNA repair and telomere regulation in a variety of organisms. Here we report a detailed characterization of the function of Ku70 in the diploid fungal pathogen Candida albicans. Both ku70 heterozygous and homozygous deletion mutants have a wild-type colony and cellular morphology, and are not sensitive to MMS or UV light. Interestingly, we observed complex effects of KU70 gene dosage on telomere lengths, with the KU70/ku70 heterozygotes exhibiting slightly shorter telomeres, and the ku70 null strain exhibiting long and heterogeneous telomeres. Analysis of combination mutants suggests that the telomere elongation in the ku70 null mutant is due mostly to unregulated telomerase action. In addition, elevated levels of extrachromosomal telomeric circles were detected in the null mutant, consistent with activation of aberrant telomeric recombination. Altogether, our observations point to multiple mechanisms of the Ku complex in telomerase regulation and telomere protection in C. albicans, and reveal interesting similarities and differences in the mechanisms of the Ku complex in disparate systems

Rad51 and DNA-PKcs are involved in the generation of specific telomere aberrations induced by the quadruplex ligand 360A that impair mitotic cell progression and lead to cell death

Functional telomeres are protected from non-homologous end-joining (NHEJ) and homologous recombination (HR) DNA repair pathways. Replication is a critical period for telomeres because of the requirement for reconstitution of functional protected telomere conformations, a process that involves DNA repair proteins. Using knockdown of DNA-PKcs and Rad51 expression in three different cell lines, we demonstrate the respective involvement of NHEJ and HR in the formation of telomere aberrations induced by the G-quadruplex ligand 360A during or after replication. HR contributed to specific chromatid-type aberrations (telomere losses and doublets) affecting the lagging strand telomeres, whereas DNA-PKcs-dependent NHEJ was responsible for sister telomere fusions as a direct consequence of G-quadruplex formation and/or stabilization induced by 360A on parental telomere G strands. NHEJ and HR activation at telomeres altered mitotic progression in treated cells. In particular, NHEJ-mediated sister telomere fusions were associated with altered metaphase-anaphase transition and anaphase bridges and resulted in cell death during mitosis or early G1. Collectively, these data elucidate specific molecular and cellular mechanisms triggered by telomere targeting by the G-quadruplex ligand 360A, leading to cancer cell death

Role of host genetics in fibrosis

Fibrosis can occur in tissues in response to a variety of stimuli. Following tissue injury, cells undergo transformation or activation from a quiescent to an activated state resulting in tissue remodelling. The fibrogenic process creates a tissue environment that allows inflammatory and matrix-producing cells to invade and proliferate. While this process is important for normal wound healing, chronicity can lead to impaired tissue structure and function

Taming the tiger by the tail: modulation of DNA damage responses by telomeres

Telomeres are by definition stable and inert chromosome ends, whereas internal chromosome breaks are potent stimulators of the DNA damage response (DDR). Telomeres do not, as might be expected, exclude DDR proteins from chromosome ends but instead engage with many DDR proteins. However, the most powerful DDRs, those that might induce chromosome fusion or cell-cycle arrest, are inhibited at telomeres. In budding yeast, many DDR proteins that accumulate most rapidly at double strand breaks (DSBs), have important functions in physiological telomere maintenance, whereas DDR proteins that arrive later tend to have less important functions. Considerable diversity in telomere structure has evolved in different organisms and, perhaps reflecting this diversity, different DDR proteins seem to have distinct roles in telomere physiology in different organisms. Drawing principally on studies in simple model organisms such as budding yeast, in which many fundamental aspects of the DDR and telomere biology have been established; current views on how telomeres harness aspects of DDR pathways to maintain telomere stability and permit cell-cycle division are discussed

When big trees fall: Damage and carbon export by reduced impact logging in southern Amazonia

We examined carbon export in whole logs and carbon accumulation as coarse woody debris (CWD) produced from forest damage during all phases of the first and second year of a certified reduced impact logging (RIL) timber harvest in southern Amazonia. Our measurements included a 100% survey of roads and log decks, assessment of canopy damage and ground disturbance in skid trails and tree-fall gaps, and measurement of carbon exported from the site in logs. Log deck and road construction crushed one and five trees in the 10–60 cm diameter at breast height (DBH) class per hectare logged, disturbed areas of 24 and 100 m2 ha−1, respectively, and together disturbed about 1% of the forest. On average 1.1–2.6 trees ha−1 were harvested over the two years. Logged gaps constituted the greatest disturbance on an area basis (4–10% of the forest) and CWD generation (1.9–4.4 Mg ha−1 logged). In gaps, felled trees severed or crushed 10 trees ≥10 cm DBH per tree logged, which corresponded to 1.7 Mg ha−1 of CWD per tree logged. Crown height – measured from the first bifurcation to the top of the crown – rather than tree height was the better predictor of gap size formed from tree felling (R2 = 0.41). Logging activities significantly reduced leaf area in roads, log decks and gaps, with the greatest reduction (48%) in log decks and least in logged gaps and roads (28–33%) compared to undisturbed forest. A total of 37 species were harvested, with 36% of the total trees harvested and 48% of the total carbon exported from the site in three of the most common species. Logging damage produced 4.9–8.8 Mg C ha−1 logged of CWD from all phases of the operation. Carbon export in whole logs (2.1–3.7 Mg C ha−1 logged) represented 1–3% of the total standing forest carbon ≥10 cm DBH (138 Mg C ha−1). The mean carbon ratio (per hectare logged) of C in CWD to C exported in logs was 2.4. The disturbance, damage, carbon export and CWD data we present advances understanding of the effect of selective logging on tropical forest dynamics of the Amazon Basin. Our results indicate that certified timber harvest in Amazonia under RIL is a viable forest management option to reduce damage and CWD production compared to conventional logging (CL) practices; however, the benefits of disturbance reduction from RIL relative to CL are only realized at greater volumes of timber extraction